Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 171 of 352
Found at i:55886767 original size:18 final size:19
Alignment explanation
Indices: 55886733--55886774 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
55886723 GCAAATGAAA
* *
55886733 CATTTCTCATTTTCATTTT
1 CATTTCTCATTTCCATTTC
55886752 CATTTC-CATTTCCATTTC
1 CATTTCTCATTTCCATTTC
55886770 CATTT
1 CATTT
55886775 TAAGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:55888550 original size:43 final size:43
Alignment explanation
Indices: 55888489--55888580 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
55888479 TATCCTAAGG
* *
55888489 GACACACGGCCGTGTAATATGACCGTGTGTCGCACACGGCTGA
1 GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGGCTAA
55888532 GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGGCTAA
1 GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGGCTAA
55888575 GACACA
1 GACACA
55888581 TGCCCGTATC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.17
Consensus pattern (43 bp):
GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGGCTAA
Found at i:55889541 original size:47 final size:47
Alignment explanation
Indices: 55889469--55889599 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
55889459 CAAATTTGAT
* * *
55889469 AAGTACCTATACCATAGCCCTTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
* * * *
55889516 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
* **
55889563 AAATACCTATGTCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
55889600 TTATTTGCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
Found at i:55899583 original size:21 final size:21
Alignment explanation
Indices: 55899543--55899582 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55899533 TAAATGAAAT
55899543 AAAAGAAAAAAAGCATAAAAC
1 AAAAGAAAAAAAGCATAAAAC
*
55899564 AAAAGAAACAAAGC-TAAAA
1 AAAAGAAAAAAAGCATAAAA
55899583 AGAAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAAAGCATAAAAC
Found at i:55899643 original size:16 final size:16
Alignment explanation
Indices: 55899609--55899642 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55899599 CGAACAGGGG
55899609 AAAGAAAGAAAGAAGA
1 AAAGAAAGAAAGAAGA
55899625 AAAGAAAGAAA-AAGA
1 AAAGAAAGAAAGAAGA
55899640 AAA
1 AAA
55899643 AACTAGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAGAAGA
Found at i:55900368 original size:18 final size:18
Alignment explanation
Indices: 55900345--55900381 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
55900335 TCTGTGATCA
55900345 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
55900363 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
55900381 A
1 A
55900382 TATGAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:55900370 original size:12 final size:12
Alignment explanation
Indices: 55900345--55900381 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
55900335 TCTGTGATCA
55900345 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
55900357 AAAGTGAAATTG
1 AAATTGAAAGTG
55900369 AAATTGAAAGTG
1 AAATTGAAAGTG
55900381 A
1 A
55900382 TATGAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:55900394 original size:18 final size:19
Alignment explanation
Indices: 55900345--55900394 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
55900335 TCTGTGATCA
55900345 AAATTGAAA-GTGAAAGTG
1 AAATTGAAATGTGAAAGTG
55900363 AAATTGAAAT-TGAAAGTG
1 AAATTGAAATGTGAAAGTG
* *
55900381 ATA-TGAATTGTGAA
1 AAATTGAAATGTGAA
55900395 TTGAAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (19 bp):
AAATTGAAATGTGAAAGTG
Found at i:55914454 original size:14 final size:14
Alignment explanation
Indices: 55914435--55914463 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55914425 AAGAAGGAGA
55914435 TACCAGAGTATGTC
1 TACCAGAGTATGTC
55914449 TACCAGAGTATGTC
1 TACCAGAGTATGTC
55914463 T
1 T
55914464 CAAGTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (14 bp):
TACCAGAGTATGTC
Found at i:55918935 original size:37 final size:36
Alignment explanation
Indices: 55918866--55918936 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
55918856 ATATATAACT
* **
55918866 TAAAAAATTAAAATTATCAAATAATGTCTAAAAATA
1 TAAAAAATAAAAATTATCAAATAAAATCTAAAAATA
55918902 TAAATAAATAAAAATTATCTAAATAAAAT-TAAAAA
1 TAAA-AAATAAAAATTATC-AAATAAAATCTAAAAA
55918937 GCTCCAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 4 0.13
37 19 0.63
38 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (36 bp):
TAAAAAATAAAAATTATCAAATAAAATCTAAAAATA
Found at i:55921863 original size:21 final size:21
Alignment explanation
Indices: 55921823--55921878 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
55921813 GTCACACATG
*
55921823 TCTCACCACT--AATTTTTAA
1 TCTCACCACTACAATATTTAA
**
55921842 TCTCATTACTACAATATTTAA
1 TCTCACCACTACAATATTTAA
55921863 TCTCACCACTACAATA
1 TCTCACCACTACAATA
55921879 ACCAATCGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 8 0.27
21 22 0.73
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.38
Consensus pattern (21 bp):
TCTCACCACTACAATATTTAA
Found at i:55924411 original size:24 final size:24
Alignment explanation
Indices: 55924375--55924421 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
55924365 TGAAGAAGAC
*
55924375 TCGGCACTGCTATCTTCAATGTAT
1 TCGGCACTACTATCTTCAATGTAT
55924399 TCGGCACTACTATCTTCAATGTA
1 TCGGCACTACTATCTTCAATGTA
55924422 CTGGACAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (24 bp):
TCGGCACTACTATCTTCAATGTAT
Found at i:55931190 original size:16 final size:17
Alignment explanation
Indices: 55931159--55931191 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55931149 TTCATAAGTA
55931159 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
55931176 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
55931192 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:55931537 original size:46 final size:45
Alignment explanation
Indices: 55931477--55931795 Score: 320
Period size: 46 Copynumber: 7.0 Consensus size: 45
55931467 TTTTACATGA
* * * ** *
55931477 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG-T
** *
55931523 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACA-T
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT-AT-CAGT
* ***
55931569 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA-GT
* * * * *
55931614 TACCATGGTATCTTTCAACCATGGCCTTACACATTTTATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATC-AGT
55931660 TGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATATCA-GT
* * * * *
55931706 TGCCATGGTGTCTTTCAACCATGGTTTTACACATTTTATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATC-AGT
* *
55931752 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
55931796 AAAGCACACT
Statistics
Matches: 227, Mismatches: 36, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 34 0.15
46 187 0.82
47 1 0.00
48 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGT
Found at i:55931584 original size:92 final size:92
Alignment explanation
Indices: 55931477--55931790 Score: 384
Period size: 92 Copynumber: 3.4 Consensus size: 92
55931467 TTTTACATGA
* * * **
55931477 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCA-GATTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATG-TTGCCATGGTATCTTTCAA
*** * * **
55931541 CCATGGTCTTGTTCATTTCATGT-TACAT
65 CCATGGTCTTACACATTTTATATCT-TGT
* ** *
55931569 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTACCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
*
55931633 CATGGCCTTACACATTTTATATCTTGT
66 CATGGTCTTACACATTTTATATCTTGT
* *
55931660 TGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCATGTTGCCATGGTGTCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATGTCATGTTGCCATGGTATCTTTCAA
*
55931724 CCATGGTTTTACACATTTTATATCTTGT
65 CCATGGTCTTACACATTTTATATCTTGT
*
55931752 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
55931791 TTCAGAAAGC
Statistics
Matches: 192, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
91 72 0.38
92 120 0.62
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTTATATCTTGT
Found at i:55933885 original size:8 final size:8
Alignment explanation
Indices: 55933872--55933896 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55933862 ATATATACTA
55933872 AATAAAAT
1 AATAAAAT
55933880 AATAAAAT
1 AATAAAAT
55933888 AATAAAAT
1 AATAAAAT
55933896 A
1 A
55933897 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:55940095 original size:29 final size:29
Alignment explanation
Indices: 55940056--55940134 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
55940046 CTTAATAATC
*
55940056 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
55940086 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
55940115 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55940135 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:55940595 original size:12 final size:12
Alignment explanation
Indices: 55940578--55940602 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55940568 GGGCATACTC
55940578 ATGTATATATAT
1 ATGTATATATAT
55940590 ATGTATATATAT
1 ATGTATATATAT
55940602 A
1 A
55940603 CTTCGGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:55943187 original size:17 final size:17
Alignment explanation
Indices: 55943165--55943199 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55943155 TCGTTTCTCC
55943165 AACTGTCAGAAAACACG
1 AACTGTCAGAAAACACG
55943182 AACTGTCAGAAAACACG
1 AACTGTCAGAAAACACG
55943199 A
1 A
55943200 CTCCAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (17 bp):
AACTGTCAGAAAACACG
Found at i:55953139 original size:33 final size:33
Alignment explanation
Indices: 55953096--55953174 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
55953086 GAATCTTTAG
*
55953096 TCTCACCATCTTCTGCAGCTGAGAAATCGCTCA
1 TCTCAACATCTTCTGCAGCTGAGAAATCGCTCA
55953129 TCTCAACATCTTCTGCAGCTGAGAAATCGCTCA
1 TCTCAACATCTTCTGCAGCTGAGAAATCGCTCA
55953162 TCTCAACATCTTC
1 TCTCAACATCTTC
55953175 ACCAGCACCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (33 bp):
TCTCAACATCTTCTGCAGCTGAGAAATCGCTCA
Found at i:55970315 original size:4 final size:4
Alignment explanation
Indices: 55970306--55970349 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
55970296 TTTATGTTTT
55970306 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA
55970350 AGGTTATTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTTA
Found at i:55973193 original size:16 final size:14
Alignment explanation
Indices: 55973174--55973211 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
55973164 TTCATTTCAT
55973174 TTACATTTAGGTTAA
1 TTACATTTA-GTTAA
55973189 CTTACATTTAGTTAA
1 -TTACATTTAGTTAA
55973204 TTA-ATTTA
1 TTACATTTA
55973212 ATTTGACACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 3 0.14
15 5 0.23
16 9 0.41
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (14 bp):
TTACATTTAGTTAA
Found at i:55975777 original size:4 final size:4
Alignment explanation
Indices: 55975768--55975862 Score: 91
Period size: 4 Copynumber: 23.8 Consensus size: 4
55975758 TAAATATTAT
* * * * * * * *
55975768 GTAC GTAC GTAT GTAT GTAC GTAT GTAC GTAT GTAC ATAT GTAT GTAT
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
* * *
55975816 GTAC GTAC GTAT GTAT ATAC GTAC GTAC GTAC GTAC GTAC GTAC GTA
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTA
55975863 TGTGTAGTGA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (4 bp):
GTAC
Found at i:55975786 original size:16 final size:16
Alignment explanation
Indices: 55975765--55975865 Score: 130
Period size: 16 Copynumber: 6.3 Consensus size: 16
55975755 ATGTAAATAT
*
55975765 TATGTACGTACGTATG
1 TATGTACGTACGTACG
*
55975781 TATGTACGTATGTACG
1 TATGTACGTACGTACG
* * *
55975797 TATGTACATATGTATG
1 TATGTACGTACGTACG
*
55975813 TATGTACGTACGTATG
1 TATGTACGTACGTACG
*
55975829 TATATACGTACGTACG
1 TATGTACGTACGTACG
*
55975845 TACGTACGTACGTACG
1 TATGTACGTACGTACG
55975861 TATGT
1 TATGT
55975866 GTAGTGAACT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 74 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (16 bp):
TATGTACGTACGTACG
Found at i:55975793 original size:8 final size:8
Alignment explanation
Indices: 55975765--55975865 Score: 112
Period size: 8 Copynumber: 12.6 Consensus size: 8
55975755 ATGTAAATAT
55975765 TATGTACG
1 TATGTACG
* *
55975773 TACGTATG
1 TATGTACG
55975781 TATGTACG
1 TATGTACG
55975789 TATGTACG
1 TATGTACG
*
55975797 TATGTACA
1 TATGTACG
*
55975805 TATGTATG
1 TATGTACG
55975813 TATGTACG
1 TATGTACG
* *
55975821 TACGTATG
1 TATGTACG
*
55975829 TATATACG
1 TATGTACG
*
55975837 TACGTACG
1 TATGTACG
*
55975845 TACGTACG
1 TATGTACG
*
55975853 TACGTACG
1 TATGTACG
55975861 TATGT
1 TATGT
55975866 GTAGTGAACT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 77 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (8 bp):
TATGTACG
Found at i:55982235 original size:18 final size:17
Alignment explanation
Indices: 55982212--55982245 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
55982202 ATCAAAGTTT
55982212 GGAAAAGAAAAAGAAAAA
1 GGAAAAG-AAAAGAAAAA
55982230 GGAAAAGAAAAGAAAA
1 GGAAAAGAAAAGAAAA
55982246 GAAGACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GGAAAAGAAAAGAAAAA
Found at i:55986658 original size:20 final size:20
Alignment explanation
Indices: 55986633--55986673 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
55986623 CGCAGCAAAT
* *
55986633 AAACAATCTCGAATAGCATG
1 AAACAATCCCGAACAGCATG
55986653 AAACAATCCCGAACAGCATG
1 AAACAATCCCGAACAGCATG
55986673 A
1 A
55986674 GTAGAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (20 bp):
AAACAATCCCGAACAGCATG
Found at i:55991123 original size:17 final size:16
Alignment explanation
Indices: 55991087--55991122 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
55991077 TAACTTTTGG
55991087 AAAATAAAAATATATA
1 AAAATAAAAATATATA
55991103 AAAATTAAAAATA-ATA
1 AAAA-TAAAAATATATA
55991119 AAAA
1 AAAA
55991123 AATTGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATAAAAATATATA
Found at i:55991123 original size:18 final size:17
Alignment explanation
Indices: 55991087--55991126 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
55991077 TAACTTTTGG
*
55991087 AAAA-TAAAAATATATA
1 AAAATTAAAAATATAAA
55991103 AAAATTAAAAATAATAAA
1 AAAATTAAAAAT-ATAAA
55991121 AAAATT
1 AAAATT
55991127 GTTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATTAAAAATATAAA
Found at i:55992618 original size:13 final size:13
Alignment explanation
Indices: 55992577--55992626 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
55992567 ACTTTTAGAT
55992577 AAAT-AATTAATA
1 AAATCAATTAATA
* *
55992589 AAATCAATTAGTC
1 AAATCAATTAATA
55992602 AAATCAATTAATA
1 AAATCAATTAATA
*
55992615 AAATAAATTAAT
1 AAATCAATTAAT
55992627 TAAACAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 4 0.12
13 28 0.88
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (13 bp):
AAATCAATTAATA
Found at i:55999399 original size:120 final size:121
Alignment explanation
Indices: 55999260--55999500 Score: 448
Period size: 121 Copynumber: 2.0 Consensus size: 121
55999250 ATTTAACTAA
* *
55999260 ATAAATAAAAATAGAAATTTATTTCATGTTTTATTATCAATTTAAATAATTATTTAAT-ATTTAT
1 ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
55999324 TATATATACATATATCTCAATTTAATCTCTTTAAATCCTATTTTCAATTTTGACTT
66 TATATATACATATATCTCAATTTAATCTCTTTAAATCCTATTTTCAATTTTGACTT
55999380 ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
1 ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
*
55999445 TATATATACATATATCTCAATTTAATCTCTTTAATTCCTATTTTCAATTTTGACTT
66 TATATATACATATATCTCAATTTAATCTCTTTAAATCCTATTTTCAATTTTGACTT
55999501 CACCAGCCCA
Statistics
Matches: 117, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
120 56 0.48
121 61 0.52
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (121 bp):
ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
TATATATACATATATCTCAATTTAATCTCTTTAAATCCTATTTTCAATTTTGACTT
Found at i:56002881 original size:46 final size:45
Alignment explanation
Indices: 56002829--56002995 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 45
56002819 TTTGTGCGCT
* * *
56002829 AGTGTAAGATATGTTTGGGACATGCATCGGCCACATTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAACA
* *
56002875 AGTGTAAGACCATGTCTGGGACATGGCATTGG--CATTGA-GACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-GA-A-CA
* *
56002923 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATAT-A-AGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C--ATTATGAGAACA
*
56002969 AGTGTAAGATATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
56002996 GACTACGAGA
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
45 6 0.06
46 45 0.45
47 27 0.27
48 17 0.17
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAACA
Found at i:56003031 original size:44 final size:44
Alignment explanation
Indices: 56002923--56003036 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
56002913 GACGAGAGCT
*
56002923 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATATAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTCGAAATAT-AGCA
* * * *
56002969 AGTGTAAGATATGTCTGGGACATGCAT-GACTACGAGATGT-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAAATATAGCA
56003012 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
56003037 GCATTAGCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 11 0.18
44 17 0.28
45 6 0.10
46 26 0.43
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAAATATAGCA
Found at i:56003144 original size:50 final size:50
Alignment explanation
Indices: 56002875--56003137 Score: 200
Period size: 50 Copynumber: 5.5 Consensus size: 50
56002865 TATGAGAACC
* * * * * *
56002875 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTG-AGA--CGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAATATGTGAAAGAT
* *
56002923 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAA-ATAT--AAGCA-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAATATGTGAAAG-AT
* * * **
56002969 AGTGTAAGA-TATGTCTGGGACAT-GCAT-GACTACG-AGATGT----GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAATATGTGAAAGAT
** *
56003012 AGTGTAAGACCATGTCTGGGACATGGCATTAGCACGGATATGTGAAAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAAAGAT
* * *
56003062 AGTATAAGACCATGTTTGGGACATGGCATCGGCACGAATATGTGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAAAGAT
56003112 AGTGTAAGACCATGTCTGGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
56003138 GGTCGGCCTC
Statistics
Matches: 174, Mismatches: 25, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
43 10 0.06
44 15 0.09
45 13 0.07
46 42 0.24
47 16 0.09
48 9 0.05
50 69 0.40
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAAAGAT
Found at i:56005549 original size:20 final size:20
Alignment explanation
Indices: 56005524--56005561 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
56005514 GATATTAAAT
*
56005524 AGATATTTATTATTTAAAAA
1 AGATATTTATTAATTAAAAA
56005544 AGATATTTATTAATTAAA
1 AGATATTTATTAATTAAA
56005562 TAATTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AGATATTTATTAATTAAAAA
Found at i:56006400 original size:31 final size:30
Alignment explanation
Indices: 56006363--56006436 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 30
56006353 TAAATTGAAT
56006363 AGAAATTCAATTATTTGTTATAATGAGTGC
1 AGAAATTCAATTATTTGTTATAATGAGTGC
*
56006393 AGAAAATTCAATTTTTTGTTATAATGAGTGC
1 AG-AAATTCAATTATTTGTTATAATGAGTGC
56006424 AGAAATTCAATTA
1 AGAAATTCAATTA
56006437 AAGTATGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 12 0.29
31 29 0.71
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (30 bp):
AGAAATTCAATTATTTGTTATAATGAGTGC
Found at i:56008809 original size:67 final size:71
Alignment explanation
Indices: 56008737--56008877 Score: 159
Period size: 77 Copynumber: 2.0 Consensus size: 71
56008727 CAATTATATA
*
56008737 AAAAATT-TGTTCTATTG-TAT-TT-TA-CA-TCAATAATATATACTTATTTATAATCTAAGAAA
1 AAAAATTGT-TTCTATTGTTATATTGTATCAGTCAATAATATATACTTATTTACAATCTAA-AAA
56008796 AAAATTTT
64 AAAATTTT
*
56008804 AAAAATTGTTTGTATTGTATTATATTGTATTCCATGTCAATAATATATACTTATTTACAATCTAA
1 AAAAATTGTTTCTATTG--TTATATTGTA-T-CA-GTCAATAATATATACTTATTTACAATCTAA
56008869 AAAAAAATT
61 AAAAAAATT
56008878 GTTTATATTG
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
67 14 0.23
68 1 0.02
70 3 0.05
71 2 0.03
72 2 0.03
75 2 0.03
76 9 0.15
77 28 0.46
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.44
Consensus pattern (71 bp):
AAAAATTGTTTCTATTGTTATATTGTATCAGTCAATAATATATACTTATTTACAATCTAAAAAAA
AATTTT
Found at i:56008929 original size:67 final size:67
Alignment explanation
Indices: 56008804--56008931 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
56008794 AAAAAATTTT
* * * * *
56008804 AAAAATTGTTTGTATTGTATTATATTGTATTCCATGTCAATAATATATACTTATTTACAATCTAA
1 AAAAATTGTTTATATTGTATTATACTGTATTCCATGTAAATAATATATACATACTTACAATCTAA
56008869 AA
66 AA
* **
56008871 AAAAATTGTTTATATTGTATTCTACTGTATTTTATGTAAATAATATAT-CAATACTTACAAT
1 AAAAATTGTTTATATTGTATTATACTGTATTCCATGTAAATAATATATAC-ATACTTACAAT
56008932 ATACCAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 1 0.02
67 51 0.98
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (67 bp):
AAAAATTGTTTATATTGTATTATACTGTATTCCATGTAAATAATATATACATACTTACAATCTAA
AA
Found at i:56012367 original size:21 final size:22
Alignment explanation
Indices: 56012333--56012373 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
56012323 TTCATTTAAG
**
56012333 TTTCATTTGTACATA-ATCATA
1 TTTCATTTCCACATACATCATA
56012354 TTTCATTTCCACATACATCA
1 TTTCATTTCCACATACATCA
56012374 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTCATTTCCACATACATCATA
Found at i:56016152 original size:16 final size:16
Alignment explanation
Indices: 56016127--56016165 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
56016117 GTCATAATAT
* *
56016127 TATTAATGAATTTTAA
1 TATTATTGAATGTTAA
*
56016143 TATTATTGAATGTTAT
1 TATTATTGAATGTTAA
56016159 TATTATT
1 TATTATT
56016166 TTTGAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
TATTATTGAATGTTAA
Found at i:56019319 original size:54 final size:55
Alignment explanation
Indices: 56019236--56019347 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 55
56019226 AAAAAAGGGT
*
56019236 AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCTGGGCC
1 AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCAGGGCC
56019291 AAAG-TAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCAGGGCC
1 AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCAGGGCC
56019345 AAA
1 AAA
56019348 AATCTTACTC
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 52 0.93
55 4 0.07
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (55 bp):
AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCAGGGCC
Found at i:56023810 original size:281 final size:280
Alignment explanation
Indices: 56023348--56023905 Score: 947
Period size: 281 Copynumber: 2.0 Consensus size: 280
56023338 GCAGACAATT
56023348 TTTTAATTAGACTAAAATGACTTTTTTTAAAAAAAAAATTTGAATATTACTATTTATATTTATGG
1 TTTTAATTAGACTAAAATGACTTTTTTTAAAAAAAAAATTTGAATATTACTATTTATATTTATGG
56023413 GTGACAAGTGTAAGAATCAAAATAATTAGACCCATTGGATCAAAGTGAATTTATTTGGACCCCAT
66 GTGACAAGTGTAAGAATCAAAATAATTAGACCCATTGGATCAAAGTGAATTTATTTGGACCCCAT
* *
56023478 GTGATGGCCTATTGATCAAAAGTGTTCATTTTCCTAAGTGTAGCTTGGATTCGAGTCGCTCTAGT
131 GTGATGGCCTATTGATCAAAAGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTCTAGT
* * *
56023543 CACGATTGTTGTTCAGGCTTTGTCTTGTTATTGTAATTCACCAAAAAAAATGAATTTATTTGAAA
196 CACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAATGAATTTATTT-AAA
*
56023608 -AATATATTATACAAAATGAC
260 CAATACATTATACAAAATGAC
** * *
56023628 TTTTAATTAGACTAAAATGACTTTTTTTAAAAAAAATTTTTTGAATGTTATTATTTATATTTATG
1 TTTTAATTAGACTAAAATGACTTTTTTTAAAAAAAA-AATTTGAATATTACTATTTATATTTATG
*
56023693 GGTGACAAGTGTAAGAATCAAAATAATTTGACCCATTGGATCAAAGTGAATTTATTTGGACCCCA
65 GGTGACAAGTGTAAGAATCAAAATAATTAGACCCATTGGATCAAAGTGAATTTATTTGGACCCCA
* ** *
56023758 TGTGATGGTCTATTGATCAAGGGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTTTAG
130 TGTGATGGCCTATTGATCAAAAGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTCTAG
*
56023823 TCACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAGTGAATTTATTTAAA
195 TCACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAATGAATTTATTTAAA
56023888 CAATACATTATACAAAAT
260 CAATACATTATACAAAAT
56023906 AAAAAACAAT
Statistics
Matches: 260, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
280 39 0.15
281 221 0.85
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (280 bp):
TTTTAATTAGACTAAAATGACTTTTTTTAAAAAAAAAATTTGAATATTACTATTTATATTTATGG
GTGACAAGTGTAAGAATCAAAATAATTAGACCCATTGGATCAAAGTGAATTTATTTGGACCCCAT
GTGATGGCCTATTGATCAAAAGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTCTAGT
CACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAATGAATTTATTTAAAC
AATACATTATACAAAATGAC
Found at i:56028463 original size:22 final size:22
Alignment explanation
Indices: 56028428--56028515 Score: 113
Period size: 22 Copynumber: 4.0 Consensus size: 22
56028418 ATGAGAGTAG
* *
56028428 GATATGTTCTGATATGTTATAT
1 GATATGCTCCGATATGTTATAT
56028450 GATATGCTCCGATATGTTATAT
1 GATATGCTCCGATATGTTATAT
*
56028472 GATATGCTCCAATATGTTATAT
1 GATATGCTCCGATATGTTATAT
* * * *
56028494 AACATTCTCTGATATGTTATAT
1 GATATGCTCCGATATGTTATAT
56028516 AATAAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (22 bp):
GATATGCTCCGATATGTTATAT
Found at i:56029386 original size:30 final size:30
Alignment explanation
Indices: 56029352--56029432 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
56029342 GAATTGCATT
56029352 AAATCAAAATTATATATATAAATTTACAC-A
1 AAATCAAAATTATATATATAAATTT-CACTA
* * *
56029382 AAATCAAAATT-TAAATACAAAATTTCACTTT
1 AAATCAAAATTATATATA-TAAATTTCAC-TA
56029413 AAATCAAAATTA-ATATATAA
1 AAATCAAAATTATATATATAA
56029433 CTTTGAGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 8 0.19
30 19 0.45
31 15 0.36
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTATATATATAAATTTCACTA
Found at i:56029837 original size:30 final size:30
Alignment explanation
Indices: 56029771--56029838 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
56029761 ATCAACACTA
* * *
56029771 GCCATTTTCCGTTACAGACGTAACGGAGAT
1 GCCATTTTCCATTACAGACATAACGAAGAT
** * *
56029801 ATCATTTTCCATTACTGACATAACGAAGTT
1 GCCATTTTCCATTACAGACATAACGAAGAT
56029831 GCCATTTT
1 GCCATTTT
56029839 ACATCCTTCT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (30 bp):
GCCATTTTCCATTACAGACATAACGAAGAT
Found at i:56043050 original size:17 final size:19
Alignment explanation
Indices: 56043030--56043069 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
56043020 ATGCAAACAA
56043030 AAGTTTAGT-T-TAAACTT
1 AAGTTTAGTATATAAACTT
56043047 AAG--TAGTATATAAACTT
1 AAGTTTAGTATATAAACTT
56043064 AAGTTT
1 AAGTTT
56043070 TGTCTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.21
16 1 0.05
17 13 0.68
19 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (19 bp):
AAGTTTAGTATATAAACTT
Found at i:56047361 original size:22 final size:22
Alignment explanation
Indices: 56047336--56047381 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
56047326 ATAATGGCAA
56047336 AAGAATTAAGAGTACAAAAGAT
1 AAGAATTAAGAGTACAAAAGAT
56047358 AAGAATTAAGAGTACAAAAGAT
1 AAGAATTAAGAGTACAAAAGAT
56047380 AA
1 AA
56047382 AGATAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.04, G:0.17, T:0.17
Consensus pattern (22 bp):
AAGAATTAAGAGTACAAAAGAT
Found at i:56049944 original size:3 final size:3
Alignment explanation
Indices: 56049938--56050492 Score: 221
Period size: 3 Copynumber: 183.3 Consensus size: 3
56049928 ATTATCACTA
*
56049938 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ACTT -TT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT
* * * * * * * ** * *
56049984 ACT ATC ATT ATT ATT TTT AGT AGT AGT ATT ATT ATC ACC ATT CTT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * ** * * * *
56050032 GTT CTT GTC CTT ACA ATT GTT ATT CTTT ATT ATT ACT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
*
56050078 ATT ATT ATT ATT ATTT ATT ATT ATT ACT ATT ACTT -TT ATT ATTT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT ATT A-TT ATT
* * *
56050125 ATT ATT GTT ACT ATT -TCT ATT ATT ATT -TT -TCT ATT ACT ATT -TAT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT AT-T
* * * * *
56050169 ATT ATT GTT GTC ATT ATT CTTT ATT -TT ATT ATT ATT ATT ATT TTCT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * *
56050215 ATT ATT GTT ATT ATT AGT A-T ATT ATT ATT ATT CTT ATT AATGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT
* * * * * * * *
56050261 ATC ACT ATT GTCT -TCC ACT -TT ATT ATT ATT -GT ATT ATC ACT ATT
1 ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
56050305 ATT ATC ATC A-T ATT AATT -TT A-T ATT A-C ATT ATAT ATT -TC CTT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
** * * *
56050347 -TT CGT ATTT ACTC ACGTC GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT A-TT A-TT A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
56050395 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC GTT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
56050443 GGT ATT -TGT ATC ATT ATT ATT ATT -TT CATC ATT ATT ATT ATTT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT A-TT ATT
56050489 ATT A
1 ATT A
56050493 ATGTTGTTAA
Statistics
Matches: 418, Mismatches: 96, Indels: 76
0.71 0.16 0.13
Matches are distributed among these distances:
2 27 0.06
3 346 0.83
4 42 0.10
5 3 0.01
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:56050269 original size:23 final size:23
Alignment explanation
Indices: 56050225--56050269 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
56050215 ATTATTGTTA
* * *
56050225 TTATTAGTATATTATTATTATTC
1 TTATTAATATATTATCACTATTC
*
56050248 TTATTAATGTATTATCACTATT
1 TTATTAATATATTATCACTATT
56050270 GTCTTCCACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTAATATATTATCACTATTC
Found at i:56053253 original size:5 final size:5
Alignment explanation
Indices: 56053245--56053271 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
56053235 AGGAAGCCCC
56053245 TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TT
56053272 GTCTGCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:56058075 original size:6 final size:6
Alignment explanation
Indices: 56058064--56058100 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
56058054 ATTTACCTTA
*
56058064 AAATAT AAATAT AAATAT AAATAT AAATAT ATATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT A
56058101 CCCAATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:56060192 original size:20 final size:18
Alignment explanation
Indices: 56060139--56060193 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
56060129 TTTTTAAAAT
*
56060139 AATATATTTTTATTTATA
1 AATATATTTTTATTTTTA
*
56060157 AA-ATATTTATAATTTTTA
1 AATATATTT-TTATTTTTA
56060175 ATATATATTTTTAGTTTTT
1 A-ATATATTTTTA-TTTTT
56060194 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.20
18 10 0.33
19 3 0.10
20 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATATATTTTTATTTTTA
Found at i:56063901 original size:18 final size:18
Alignment explanation
Indices: 56063859--56063950 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 18
56063849 GAAAAATGAG
56063859 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
56063876 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
56063893 AATTTTTG-AAAC-CTGAA
1 AATTTTTGAAAACAC-GAA
**
56063910 TTTTTTTTAGAAAAACACGAA
1 -AATTTTT-G-AAAACACGAA
* *
56063931 AAATTTTGGAAACACGAA
1 AATTTTTGAAAACACGAA
56063949 AA
1 AA
56063951 GATTACAACA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
16 5 0.08
17 21 0.34
18 21 0.34
19 2 0.03
20 4 0.07
21 7 0.11
22 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:56065456 original size:30 final size:30
Alignment explanation
Indices: 56065398--56065513 Score: 105
Period size: 30 Copynumber: 3.9 Consensus size: 30
56065388 TGTAATTTTT
* *
56065398 AGAAAATTTA-GGGTTAAAAT-ACAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGA-AATTTAA
* * *
56065427 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
56065457 AGAAAGTGTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
56065486 GGAAAAG-TTAGGGGTCAAAATGTAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
56065514 TTATTTTTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
29 28 0.40
30 41 0.59
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.29
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:56065533 original size:13 final size:15
Alignment explanation
Indices: 56065509--56065542 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
56065499 GTCAAAATGT
56065509 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
56065523 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
56065537 AATTTT
1 AATTTT
56065543 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:56065969 original size:54 final size:54
Alignment explanation
Indices: 56065784--56066164 Score: 601
Period size: 54 Copynumber: 7.1 Consensus size: 54
56065774 CACGTGAGCC
* * * *
56065784 AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTG-AAAATAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
56065839 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
56065889 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
56065943 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
56065997 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAACTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAA
56066053 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
56066107 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AA
56066162 AAG
1 AAG
56066165 TAGAAATTGA
Statistics
Matches: 305, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
50 48 0.16
52 1 0.00
54 156 0.51
55 44 0.14
56 56 0.18
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:56066080 original size:110 final size:107
Alignment explanation
Indices: 56065784--56066164 Score: 590
Period size: 110 Copynumber: 3.5 Consensus size: 107
56065774 CACGTGAGCC
* * *
56065784 AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTG-AAAATAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
56065848 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AGA--AA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTAA
* *
56065889 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
56065954 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTAA
* * *
56065997 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAACTAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCACAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAAAGGCTCAA
56066062 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTAA
56066107 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAG
56066165 TAGAAATTGA
Statistics
Matches: 256, Mismatches: 12, Indels: 12
0.91 0.04 0.04
Matches are distributed among these distances:
104 47 0.18
105 36 0.14
106 12 0.05
108 51 0.20
109 7 0.03
110 103 0.40
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (107 bp):
AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTAA
Found at i:56066093 original size:164 final size:159
Alignment explanation
Indices: 56065784--56066164 Score: 622
Period size: 164 Copynumber: 2.4 Consensus size: 159
56065774 CACGTGAGCC
* * *
56065784 AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTG-AAAATAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAAAGGCTCAA
56065848 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAAGGCTCAACTCACCTCTCGCAAT
65 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAAGGCTCAACTCACCTCTCGCAAT
*
56065913 ATGAGTTGGTTTTTGAAAAACAGAAATTAA
130 ATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
56065943 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGGCTCAAC
*
56066007 TCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAACTAAAAGGCTCAACTCACCTCTC
66 TCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAG--A--AAAAGGCTCAACTCACCTCTC
56066072 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
125 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
56066107 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
56066165 TAGAAATTGA
Statistics
Matches: 205, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
158 33 0.16
159 38 0.19
160 23 0.11
162 1 0.00
164 105 0.51
165 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (159 bp):
AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:56066162 original size:14 final size:14
Alignment explanation
Indices: 56066143--56066177 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56066133 GAGTTGATTT
56066143 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
56066157 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
56066171 TTGAAAA
1 TTGAAAA
56066178 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56066260 original size:15 final size:15
Alignment explanation
Indices: 56066240--56066268 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56066230 TTTTTGAAAC
56066240 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
56066255 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
56066269 CAAAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:56066335 original size:106 final size:105
Alignment explanation
Indices: 56066146--56066335 Score: 251
Period size: 106 Copynumber: 1.8 Consensus size: 105
56066136 TTGATTTTTG
** * * *
56066146 AAAAACAGAAATTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTTACCTC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTC
*
56066211 TTGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTAA
66 TCGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTAA
56066251 AAAAACAGAAATT-AAAAACA-AAATTTGAAAAGACCTCAGCGTGTGGCCC-GAGACTCAACTCA
1 AAAAACAGAAATTGAAAAACAGAAA-TTGAAAAGACCTCAGC--GT-GCCCTGAGACTCAACTCA
* *
56066313 TCTCTCGCAATATGAGTTGATTT
62 CCTCTCGCAATATGAGCTGATTT
56066336 GAAAAGCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
103 3 0.04
104 20 0.27
105 13 0.18
106 33 0.45
107 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (105 bp):
AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTC
TCGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTAA
Found at i:56066457 original size:15 final size:16
Alignment explanation
Indices: 56066424--56066457 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
56066414 TTAATTTTTG
*
56066424 AAAAACATAGATTGAA
1 AAAAACATAAATTGAA
56066440 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
56066456 AA
1 AA
56066458 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:56066587 original size:178 final size:175
Alignment explanation
Indices: 56066251--56066767 Score: 499
Period size: 178 Copynumber: 3.0 Consensus size: 175
56066241 CAGAAATTAA
* * *
56066251 AAAAACAGAAATT-AAAAACAAAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCATC
1 AAAAACAGAAATTGAAAAACAAAA-TTGAAAACACCTCAGCATGTGGCCCGAGACTCAACTCACC
* *
56066315 TCTCGCAATATGAGTTGATTTGAAAAGCAGAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGT
65 TCTCGCAATATGAGTTCATTTGAAAAGCAAAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGT
**
56066380 GCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTG
130 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG
* * * * *
56066424 AAAAACATAGATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAG-CCGAGGCTCAACTG
1 AAAAACAGAAATTG--AAAAACA-AAATTGAAAACACCTCAGCATGTG-GCCCGAGACTCAACTC
56066488 ACCTCTCGCAATATGAGTTCATTTTTGACAAA-CATAAATTGAG-AAA-CAGAAATTGAAAATAC
62 ACCTCTCGCAATATGAGTTCA--TTTGA-AAAGCA-AAATT-AGTAAAGCAGAAATTGAAAATAC
* *
56066550 CTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
122 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG
* * ** ** *
56066604 AAAAACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACT
1 AAAAACAGAAATTGAAAAACA-AAATTGAAAACACCTCAGCATGTGGCCCGAGACTCAACTCACC
* * * *
56066665 TCTCGCAATATGAGTTGATTT----------TTTTG-AAAGACAGAAATTGAAAATACCTCAACG
65 TCTCGCAATATGAGTTCATTTGAAAAGCAAAATTAGTAAAG-CAGAAATTGAAAATACCTCAGCG
* **
56066719 TGTCTTGAGGCTCAACTCA-CTCTCGCAATATGAGTTG--ATTTTTG
129 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG
56066763 AAAAA
1 AAAAA
56066768 TAAATTGAAA
Statistics
Matches: 296, Mismatches: 33, Indels: 44
0.79 0.09 0.12
Matches are distributed among these distances:
159 11 0.04
160 4 0.01
161 20 0.07
162 37 0.12
172 3 0.01
173 11 0.04
174 29 0.10
176 59 0.20
177 4 0.01
178 87 0.29
179 11 0.04
180 20 0.07
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (175 bp):
AAAAACAGAAATTGAAAAACAAAATTGAAAACACCTCAGCATGTGGCCCGAGACTCAACTCACCT
CTCGCAATATGAGTTCATTTGAAAAGCAAAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG
Found at i:56066599 original size:87 final size:87
Alignment explanation
Indices: 56066251--56066708 Score: 489
Period size: 87 Copynumber: 5.2 Consensus size: 87
56066241 CAGAAATTAA
* * * *
56066251 AAAAACAGAAATT-AAAAACA-AAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCAT
1 AAAAACAGAAATTGAAAAACAGAAA-TTGAAAATACCTCA--GTGTGCCCCGAGGCTCAACTCAC
56066314 CTCTCGCAATATGAGTTGA--TTTG
63 CTCTCGCAATATGAGTTGATTTTTG
* * * * **
56066337 AAAAGCAG-AATTAGTAAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCT
1 AAAAACAGAAATT-GAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCT
*
56066401 CTCGCAATATGAGTTAATTTTTG
65 CTCGCAATATGAGTTGATTTTTG
* * * ** *
56066424 AAAAACATAGATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTGA
1 AAAAACAGAAATTG--AAAAACAGAAATTGAAAATACCTCAG--TGTGCCCCGAGGCTCAACTCA
*
56066489 CCTCTCGCAATATGAGTTCATTTTTG
62 CCTCTCGCAATATGAGTTGATTTTTG
* * *
56066515 ACAAACATAAATTGAGAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
56066580 TCGCAATATGAGTTGATTTTTTTG
66 TCGCAATATGAGTTGA--TTTTTG
* * * * ** * *
56066604 AAAAACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGT--CTTGAGGTTCAACTCACTTC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
56066667 TCGCAATATGAGTTGATTTTTTTG
66 TCGCAATATGAGTTGA--TTTTTG
*
56066691 AAAGACAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
56066709 TACCTCAACG
Statistics
Matches: 315, Mismatches: 45, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
85 39 0.12
86 7 0.02
87 122 0.39
88 6 0.02
89 89 0.28
91 52 0.17
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:56066624 original size:14 final size:14
Alignment explanation
Indices: 56066601--56066635 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56066591 GTTGATTTTT
56066601 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
56066615 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
*
56066629 TGGAAAA
1 TTGAAAA
56066636 CACCTCAGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.20, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56066875 original size:75 final size:75
Alignment explanation
Indices: 56066615--56068351 Score: 1269
Period size: 75 Copynumber: 23.0 Consensus size: 75
56066605 AAAACAGAAA
* * * * * *
56066615 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56066678 GTTGATTTTT
66 GTTGATTTTT
*
56066688 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56066752 GTTGA--TTT
66 GTTGATTTTT
* * * * *
56066760 TTG-AAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56066823 GTTGATTTTT
66 GTTGATTTTT
* *
56066833 TTGAAAAACAGAAATTGAAAATATCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56066898 GTTGA--TTT
66 GTTGATTTTT
* * * * *
56066906 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56066971 GTTGATTTTT
66 GTTGATTTTT
* ***
56066981 TTGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAACGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
56067046 GAGTTGATTTTT
64 GAGTTGATTTTT
* ** * * *
56067058 TT---TATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56067120 GTTGA-TTTT
66 GTTGATTTTT
** * * *
56067129 TTG---ATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56067191 GTTGATTTTT
66 GTTGATTTTT
* *
56067201 TTGATTTTTTTTGAAAGGCAGAAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TTGA---------AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
56067266 CGCAATATGAGTT-A-ATTT
56 CGCAATATGAGTTGATTTTT
* * * * * *
56067284 TTG-AAAA-ATAAATTGAAAATGCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGC
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56067347 GTTGATTTTT
66 GTTGATTTTT
*
56067357 TTGAAAAACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
56067422 GTTG--GTTT
66 GTTGATTTTT
* * * * * * *
56067430 TTGACAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56067495 GTTGATTTTT
66 GTTGATTTTT
* ** *
56067505 TTGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAATGAGGCTCAACTCACATCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
56067570 GAGTTGATTTTT
64 GAGTTGATTTTT
* ** * * * *
56067582 TT---TATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATCTGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56067644 GTTGA--TTT
66 GTTGATTTTT
* * ** ** * * * * *
56067652 TTG-AAAA-ATAAATT-AAAACA-CAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTC
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTG----T--CT-TGAG-G-CTC-A-ACTCACCTC
* * * * **
56067713 AC-C--TCTCGCAATATGAGTTGA
55 TCGCAATAT-G-AGT-TGATTTTT
*** * * ** ** *** * *
56067734 TTTTTAAA-A-AACA-T-AAATTGAACAGAAATTGAAAAT-A-CCTCAACGTGTCTTGAGGCTCA
1 TTGAAAAACAGAA-ATTGAAAAT-ACCTCAACGTG-TCTTGAGGCTCAAC---TC---A-CCTC-
* * * * * * **
56067793 ACTCACCTCTCGCAATATGAGTTGA
55 TCGCA-ATAT-G-AGT-TGATTTTT
***** * * ** * *** * *
56067818 TTTTTTGA-TGATAAATTGAAA-A--T--ACCTCAATGTGACTTGAG-GCTCAACTCACCTCTCG
1 TTGAAAAACAGA-AATTGAAAATACCTCAACGTGTCT-TGA---G-GCTC-AA-CTCACCTCTCG
56067876 CAATATGAGTTGATTTTT
58 CAATATGAGTTGATTTTT
*
56067894 TTGATTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TTGA---------AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
56067959 CGCAATATGAGTTGA--TTT
56 CGCAATATGAGTTGATTTTT
* * * * * *
56067977 TTG-AAAA-ATAAATTGAAAATGCCTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
56068040 GTTGATTTAT
66 GTTGATTTTT
*
56068050 TTGAAAAACAGAAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56068115 GTTGA--TTT
66 GTTGATTTTT
* * * * *
56068123 TTGATAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56068188 GTTGATTTTTTTT
66 GTTGA---TTTTT
* *
56068201 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
56068266 GTTGATTTTTT
66 GTTGA-TTTTT
* * *
56068277 TTGAAAAACAGAAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
56068341 AGTTTATTTTT
65 AGTTGATTTTT
56068352 GACAAATAAA
Statistics
Matches: 1354, Mismatches: 202, Indels: 214
0.76 0.11 0.12
Matches are distributed among these distances:
69 5 0.00
70 47 0.03
71 205 0.15
72 81 0.06
73 243 0.18
74 77 0.06
75 255 0.19
76 74 0.05
77 86 0.06
78 71 0.05
79 9 0.01
80 18 0.01
81 8 0.01
82 11 0.01
83 18 0.01
84 34 0.03
85 84 0.06
86 11 0.01
87 8 0.01
88 1 0.00
89 1 0.00
90 3 0.00
91 4 0.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:56067272 original size:156 final size:148
Alignment explanation
Indices: 56066621--56068609 Score: 1843
Period size: 156 Copynumber: 13.1 Consensus size: 148
56066611 GAAATTGAAG
* * * * * *
56066621 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
56066684 TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAAT
65 TTTTTTGAAAG--ATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAAT
56066748 ATGAGTTGA--TTTTTG--AA
128 ATGAGTTGATTTTTTTGATAA
* * * *
56066765 AA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * * *
56066829 TTTTTTGAAAAACAGAAATTGAAAATATCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAAT
65 TTTTTTG--AAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAAT
*
56066894 ATGAGTTGA--TTTTTGA-CA
128 ATGAGTTGATTTTTTTGATAA
* * *
56066912 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * ***
56066977 TTTTTTGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAACGAGGCTCAACTCACCTCTCGCA
65 TTTTTTG--AAAGATAAATTGAAAATACCTCAAC--GTGACTTGAGGCTCAACTCACCTCTCGCA
56067042 ATATGAGTTGATTTTTTT--T--
126 ATATGAGTTGATTTTTTTGATAA
** * * * *
56067061 ATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
56067126 TTTTTG-ATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATG
66 TTTTTGAAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATG
56067190 AGTTGATTTTTTTGATTTTTTTTGAA
131 AGTTGATTTTTTTGA-------T-AA
* * *
56067216 AGGCAGAAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A
1 A-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * * *
56067280 ATTTTTGAAAAATAAATTGAAAATGCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
65 TTTTTTGAAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATAT
*
56067345 GCGTTGATTTTTTTGA-AA
130 GAGTTGATTTTTTTGATAA
* * *
56067363 AACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-G
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * * * * *
56067427 TTTTTGACAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACTTCTCGCAATA
66 TTTTTG--AAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATA
56067492 TGAGTTGATTTTTTTGA-AA
129 TGAGTTGATTTTTTTGATAA
* ** *
56067511 AACAGAAATTGAAAACACCTCAACGTGTGAAATGAGGCTCAACTCACATCTCGCAATATGAGTTG
1 AACAGAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
** * * *
56067576 ATTTTTTTTATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATC
64 ATTTTTTGAAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATA
**
56067641 TGAGTTGATTTTTGAAAAATAAATTAAA
129 TGAGTTGATTTTT------TTGA-T-AA
* * * * *
56067669 ACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
56067734 TTTTTAAAAAACAT-AAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
65 TTTTT--------TGAAA--G---ATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCA
56067798 CCTCTCGCAATATGAGTTGA-TTTTTTGAT--
117 CCTCTCGCAATATGAGTTGATTTTTTTGATAA
* * * * *
56067827 --GATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA---G--
* *
56067890 TTTTTTGATTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
61 ----TTGA--TTTTTTGAAA-G-ATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCAC
56067955 CTCTCGCAATATGAGTTGA--TTTTTG--AA
118 CTCTCGCAATATGAGTTGATTTTTTTGATAA
* * * * *
56067982 AA-ATAAATTGAAAATGCCTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
56068046 TTATTTGAAAAACAGAAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
66 TT-TTTG--AAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAAT
56068111 ATGAGTTGA--TTTTTGAT-A
128 ATGAGTTGATTTTTTTGATAA
* * *
56068129 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
56068194 TTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
65 ---TTTTTTGAAAGAT--AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGC
56068259 AATATGAGTTGATTTTTTTTGA-AA
125 AATATGAGTTGA-TTTTTTTGATAA
* * *
56068283 AACAGAAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTA
1 AACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
56068347 TTTTTGACAAATAAATTGACAAACGA-AAATTGAAAATACCTCAGCAT--CTTGAGGCTCAACTC
65 --TTT------T---TTG--AAA-GATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTC
56068409 ACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTTGAA
116 ACCTCTCGCAATATGAGTTGATTTTTTTGA---------T-AA
* *
56068452 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * * *
56068517 -TTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGA-GCTCAACTCACCTTTTGCAATAT
65 TTTTTTGAAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATAT
*
56068580 GAGTTGA--TTTTTGA-CA
130 GAGTTGATTTTTTTGATAA
56068596 AACAGAAATTGAAA
1 AACAGAAATTGAAA
56068610 CATCAAAATA
Statistics
Matches: 1581, Mismatches: 148, Indels: 233
0.81 0.08 0.12
Matches are distributed among these distances:
143 72 0.05
144 4 0.00
145 103 0.07
146 159 0.10
147 16 0.01
148 250 0.16
149 118 0.07
150 67 0.04
151 67 0.04
152 14 0.01
153 4 0.00
154 64 0.04
155 73 0.05
156 255 0.16
157 65 0.04
158 23 0.01
159 61 0.04
161 24 0.02
162 2 0.00
163 3 0.00
164 7 0.00
165 1 0.00
166 6 0.00
167 2 0.00
168 4 0.00
169 60 0.04
170 53 0.03
171 4 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (148 bp):
AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGAAAGATAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTGATAA
Found at i:56067300 original size:85 final size:85
Alignment explanation
Indices: 56067137--56067301 Score: 222
Period size: 85 Copynumber: 1.9 Consensus size: 85
56067127 TTTTGATGAT
* * *
56067137 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
** ** ***
56067202 TGATTTTTTTTGAAAGGCAG
66 AAAAATAAATTGAAAGGCAG
* *
56067222 AAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
56067287 AAAAATAAATTGAAA
66 AAAAATAAATTGAAA
56067302 ATGCCTCAGC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (85 bp):
AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
AAAAATAAATTGAAAGGCAG
Found at i:56067319 original size:524 final size:526
Alignment explanation
Indices: 56066679--56068609 Score: 2473
Period size: 524 Copynumber: 3.6 Consensus size: 526
56066669 GCAATATGAG
56066679 TTGA-TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-CTCT
1 TTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
56066742 CGCAATATGAGTTGATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
66 CGCAATATGAGTTAATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
* *
56066807 ACCTCTTGCAATATGAGTTGATTTTTTTGA-AAA-ACAGAAATTGAAAATATCTCAACGTGTCTT
131 ACCTCTCGCAATATGAGTTGATTTTTTTGATAAAGACAGAAATTGAAAATACCTCAACGTGTCTT
* *
56066870 GAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
196 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAA-AAAAATTGAAAATACCTCAG
*
56066935 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
259 CGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
*
56067000 AACACCTCAACGTGTGAAACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGA
324 AACACCTCAACGTGTGAAATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGA
56067065 TAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
389 TAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
56067130 TG-ATGAT-AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGT
454 TGAATGATAAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGT
56067193 TGATTTTT
519 TGATTTTT
* *
56067201 TTGATTTTTTTTGAAAGGCAGAAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
56067266 CGCAATATGAGTTAATTTTTGAAAAATAAATTGAAAATGCCTCAGCGTGCCCTGAGGCTCAACTC
66 CGCAATATGAGTTAATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
* *
56067331 ACCTCTCGCAATATGCGTTGATTTTTTTGA-AAA-ACAGAAACTGAAAATACCTCAACGTGTCTT
131 ACCTCTCGCAATATGAGTTGATTTTTTTGATAAAGACAGAAATTGAAAATACCTCAACGTGTCTT
* *
56067394 GAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGACAAACAAAAATTGAAATTACCTCAG
196 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAA-AAAAATTGAAAATACCTCAG
* * *
56067459 CATGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
259 CGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
*
56067524 AACACCTCAACGTGTGAAATGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTTATGA
324 AACACCTCAACGTGTGAAATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGA
*
56067589 TAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATCTGAGTTGA-TTTT
389 TAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * **
56067653 TGAAAAATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTC
454 TG---AAT-GA-T--------AAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTC
56067718 TCGCAATATGAGTTGATTTTT
506 TCGCAATATGAGTTGATTTTT
*** ** ***
56067739 AAAAAACATAAATTG--A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
1 --TTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
* ** ** * *
56067801 CTCGCAATATGAGTTGATTTTTTG-ATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAA
64 CTCGCAATATGAGTT-AATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAA
*
56067865 CTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTGAAAGGCAGAAATTGAAAATACCT
128 CTCACCTCTCGCAATATGAGTTGATTTTTTTGA-------T-AAAGACAGAAATTGAAAATACCT
*
56067930 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAA
185 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAATTGAAA
* * *
56067995 ATGCCTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATTTGAAAAACA
250 ATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
**
56068060 GAAATTGAAAACACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
315 GAAATTGAAAACACCTCAACGTGTGAAATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * ** * * ** * *
56068123 TTGATAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
380 TT-TTTATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
56068188 GTTGATTTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
444 GTTGA----TTTTTTGAATGATA-AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACC
56068253 TCTCGCAATATGA---G------
504 TCTCGCAATATGAGTTGATTTTT
* * * *
56068267 TTGATTTTTTTTGAAAAACAGAAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
56068331 TCGCAATATGAGTTTATTTTTGACAAATAAATTGACAAACGAAAATTGAAAATACCTCAGCAT--
65 TCGCAATATGAGTTAATTTTTG---AA-AAA-T---------AAATTGAAAATACCTCAGCGTGC
*
56068394 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTTGAAAGACAGA
116 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA---------T-AAAGACAGA
*
56068459 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGA
171 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * *
56068524 AAAATAAATTGAAAATACCTCAGCGTGCCCTGA-GCTCAACTCACCTTTTGCAATATGAGTTGA-
236 AAAAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
56068587 -TTTTTGACAAACAGAAATTGAAA
301 TTTTTTGAAAAACAGAAATTGAAA
56068610 CATCAAAATA
Statistics
Matches: 1252, Mismatches: 99, Indels: 98
0.86 0.07 0.07
Matches are distributed among these distances:
522 4 0.00
523 59 0.05
524 374 0.30
526 5 0.00
527 2 0.00
528 12 0.01
529 54 0.04
532 1 0.00
533 1 0.00
534 2 0.00
536 1 0.00
537 173 0.14
538 66 0.05
540 26 0.02
541 45 0.04
542 28 0.02
543 168 0.13
544 57 0.05
545 93 0.07
546 8 0.01
547 67 0.05
549 6 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (526 bp):
TTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTAATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTTGATAAAGACAGAAATTGAAAATACCTCAACGTGTCTT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAATTGAAAATACCTCAGCG
TGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
CACCTCAACGTGTGAAATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGATA
AATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AATGATAAAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTT
Found at i:56067733 original size:85 final size:84
Alignment explanation
Indices: 56067590--56067822 Score: 308
Period size: 84 Copynumber: 2.8 Consensus size: 84
56067580 TTTTTATGAT
* * ** *
56067590 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATCTGAGTTGATTTTT-
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
*
56067654 GAAAA-ATAAATTAAAACACAA
66 AAAAACATAAATT--AA-ACAA
* *
56067675 AAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
* *
56067740 AAAAACATAAATTGAACAG
66 AAAAACATAAATTAAACAA
* **
56067759 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
56067823 TGATGATAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
84 62 0.47
85 58 0.44
86 4 0.03
87 7 0.05
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (84 bp):
AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
AAAAACATAAATTAAACAA
Found at i:56067810 original size:693 final size:677
Alignment explanation
Indices: 56066649--56068591 Score: 2775
Period size: 693 Copynumber: 2.8 Consensus size: 677
56066639 CTCAGCGTCT
* * *
56066649 TGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCT
*
56066714 CAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAATTGAA
66 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAA
* * *
56066777 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAAC
131 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
* *
56066842 AGAAATTGAAAATATCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTT
196 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*** *
56066907 TGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
261 T-TTTAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
56066972 TTGATTTTT-----T---TGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAACGAGGCTCAA
325 TTGATTTTTGAAAATAAATTAAAAACAAAAATTGAAAATACCTC-A-GCGTG-CACGAGGCTCAA
** * * *
56067029 CTCACCTCTCGCAATATGAGTTGATTTTT-TTT-ATGATAAATTGAAAATACCTCAATGTGACTT
387 CTCACCTCTCGCAATATGAGTTGATTTTTATTTGAACAGAAATTGAAAATACCTCAACGTGTCTT
56067092 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATG
452 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATG
56067157 TGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTGAAAGGCAG
517 TGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTGAAAGGCAG
*
56067222 AAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
582 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
56067287 AAAAATAAATTGAAAATGCCTCAGCGTGCCC
647 AAAAATAAATTGAAAATGCCTCAGCGTGCCC
* *
56067318 TGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTTTTTGAAAAACAGAAACTGAAAATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCT
*
56067383 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGACAAACAAAAATTGA
66 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAAAAATTGA
* *
56067448 AATTACCTCAGCATGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAA
130 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
* ** *
56067513 CAGAAATTGAAAACACCTCAACGTGTGAAATGAGGCTCAACTCACATCTCGCAATATGAGTTGAT
195 CAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** * ** * * *
56067578 TTTTTTTATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATCTG
258 TTTTTTTAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
56067643 AGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTC
323 AGTTGATTTTTG-AAAATAAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTG-CACGAGGCTC
56067708 AACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACATAAATTGAACAGAAATTGAAAATACC
385 AACTCACCTCTCGCAATATGAGTTGATTTTT-------AT---TTGAACAGAAATTGAAAATACC
56067773 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAA
440 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAA
56067838 AATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTT
505 AATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTT
56067903 TTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
570 TTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
56067968 AGTTGATTTTTGAAAAATAAATTGAAAATGCCTTAGCGTGCCC
635 AGTTAATTTTTGAAAAATAAATTGAAAATGCCTCAGCGTGCCC
* *
56068011 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATTTGAAAAACAGAAATTGAAAACACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCT
56068076 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAACAAAAATTGA
66 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAAAAATTGA
56068141 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAA
130 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAA
* *
56068206 AGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
192 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
56068271 TTTTTTTTGAAAAACAGAAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
257 TTTTTTTT----AACAAAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
* * * * **
56068335 AATATGAGTTTATTTTTGACAAATAAATTGACAAACGAAAATTGAAAATACCTCAGCAT-CTTGA
317 AATATGAGTTGATTTTTGA-AAATAAATT-AAAAACAAAAATTGAAAATACCTCAGCGTGCACGA
56068399 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTTGAAAGACAGAAATTG
380 GGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-A-------TTTG--A-ACAGAAATTG
* **
56068464 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAAAA
432 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGA
** * * * *
56068528 TAAATTGAAAATACCTCAGCGTGCCCTGA-GCTCAACTCACCTTTTGCAATATGAGTTGATTTTT
496 TAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
56068592 GACAAACAGA
Statistics
Matches: 1138, Mismatches: 86, Indels: 71
0.88 0.07 0.05
Matches are distributed among these distances:
669 84 0.07
670 25 0.02
671 3 0.00
672 92 0.08
673 60 0.05
674 37 0.03
679 1 0.00
681 43 0.04
682 6 0.01
683 17 0.01
689 1 0.00
692 3 0.00
693 423 0.37
694 41 0.04
696 73 0.06
697 5 0.00
698 131 0.12
699 93 0.08
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (677 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCT
CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAA
ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTTAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAATAAATTAAAAACAAAAATTGAAAATACCTCAGCGTGCACGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTATTTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATGTGAC
TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTGAAAGGCAGAAAT
TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAA
ATAAATTGAAAATGCCTCAGCGTGCCC
Found at i:56067875 original size:71 final size:71
Alignment explanation
Indices: 56067759--56068351 Score: 354
Period size: 76 Copynumber: 7.9 Consensus size: 71
56067749 AATTGAACAG
*
56067759 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
56067824 GATGAT
66 GATGAT
*
56067830 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
56067895 TGAT-TT
65 TGATGAT
*** * ** * ** ** * * * * *
56067901 TTTTTGAAAGGCAGAAATTGAAAAT-ACCTCAACGTGTCTTGAGGCTCAACTCAC-C--TCTCGC
1 AAATTGAAA---A-TACCTCAACGTGA-CTTGA-G-G-C-TCA-ACTCACCTCTCGCAATAT-G-
* **
56067962 AATATGAGTTGATTTTTGAAAAAT
54 AGT-TGA-TT--TTTT-G-ATGAT
* * * * *
56067986 AAATTGAAAATGCCTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TT
** *
56068051 TGAAAAACAG
65 TG---ATGAT
* *
56068061 AAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
56068125 GATAAACAA
66 GAT---GAT
* * * *
56068134 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT
*
56068199 TTTTGAAAGAT
62 TTTTG-ATGAT
*
56068210 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
** *
56068275 TTTTGAAAAACAG
62 TTTTG---ATGAT
* * * * *
56068288 AAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTT
1 AAATTGAAAA-TACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
56068352 GACAAATAAA
Statistics
Matches: 412, Mismatches: 70, Indels: 77
0.74 0.13 0.14
Matches are distributed among these distances:
70 1 0.00
71 64 0.16
72 9 0.02
73 63 0.15
74 12 0.03
75 71 0.17
76 72 0.17
77 8 0.02
78 70 0.17
79 9 0.02
80 14 0.03
81 5 0.01
82 5 0.01
83 1 0.00
84 1 0.00
85 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GATGAT
Found at i:56067993 original size:85 final size:85
Alignment explanation
Indices: 56067830--56067994 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 85
56067820 TTTTGATGAT
* *
56067830 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** ** ***
56067895 TGATTTTTTTTGAAAGGCAG
66 AAAAATAAATTGAAAGGCAG
*
56067915 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
56067980 AAAAATAAATTGAAA
66 AAAAATAAATTGAAA
56067995 ATGCCTTAGC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (85 bp):
AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATAAATTGAAAGGCAG
Found at i:56068510 original size:87 final size:86
Alignment explanation
Indices: 56068270--56068521 Score: 291
Period size: 85 Copynumber: 2.9 Consensus size: 86
56068260 ATATGAGTTG
* * *
56068270 ATTTTTTTTGAAAAACAGAAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
1 ATTTTTTTTG-AAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
*
56068334 CAATATGAGTT--TATTTTTGAC
64 CAATATGAGTTGATTTTTTTGAC
** *** **
56068355 AAATAAATTGACAAAC-GAAAATTGAAAATACCTC-A-GCATCTTGAGGCTCAACTCACCTCTCG
1 ATTTTTTTTGA-AAACAG-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
*
56068417 CAATATGAGTTGATTTTTTTGAT
64 CAATATGAGTTGATTTTTTTGAC
* *
56068440 TTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCAC
1 ATTTTTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
56068505 AATATGAGTTGATTTTT
65 AATATGAGTTGATTTTT
56068522 GAAAAATAAA
Statistics
Matches: 137, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
83 35 0.26
84 4 0.03
85 50 0.36
86 6 0.04
87 42 0.31
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (86 bp):
ATTTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAC
Found at i:56068578 original size:70 final size:72
Alignment explanation
Indices: 56068444--56068609 Score: 237
Period size: 70 Copynumber: 2.3 Consensus size: 72
56068434 TTTGATTTTT
* *
56068444 TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATA
1 TTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCACAATA
56068509 TGAGTTGA
65 TGAGTTGA
* * * **
56068517 TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGA-GCTCAACTCACCTTTTGCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCACAATAT
56068580 GAGTTGA
66 GAGTTGA
56068587 TTTTTGACAAACAGAAATTGAAA
1 TTTTTGA-AAACAGAAATTGAAA
56068610 CATCAAAATA
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
70 34 0.41
71 29 0.35
72 11 0.13
73 9 0.11
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (72 bp):
TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCACAATAT
GAGTTGA
Found at i:56070209 original size:14 final size:14
Alignment explanation
Indices: 56070186--56070223 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
56070176 GACCTCTCCA
56070186 TTTTCTTTTCTTTCT
1 TTTTC-TTTCTTTCT
56070201 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
56070215 TTTTGCTTT
1 TTTT-CTTT
56070224 TGAATGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:56075189 original size:3 final size:3
Alignment explanation
Indices: 56075181--56075235 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
56075171 ACTAATTTAA
56075181 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
56075229 AAT AAT A
1 AAT AAT A
56075236 CAAACCAGCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:56076043 original size:29 final size:29
Alignment explanation
Indices: 56076010--56076126 Score: 119
Period size: 30 Copynumber: 4.0 Consensus size: 29
56076000 TGTAATTTTT
* *
56076010 AGAAAATTT-AGGGTTAAAATGCAATTTA
1 AGAAAATTTAAGGGTCAAAATGAAATTTA
* * *
56076038 ATGAAAGTTTAAGGGTCTAAGTGAAATTTAA
1 A-GAAAATTTAAGGGTCAAAATGAAATTT-A
* *
56076069 AGAAAGTTTAAGGGTCAAAATAAAATTTA
1 AGAAAATTTAAGGGTCAAAATGAAATTTA
* *
56076098 AGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AGAAAA-TTTAAGGGTCAAAATGAAATTT
56076127 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.01
29 13 0.18
30 57 0.78
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAAGGGTCAAAATGAAATTTA
Found at i:56076126 original size:60 final size:59
Alignment explanation
Indices: 56075997--56076126 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 59
56075987 TTCTGGGGCT
** * ** *
56075997 AAATGTAATTTTTAGAAAATTTAGGGTTAAAATGCAATTTAATGAAAGTTTAAGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGGTCAAAATAAAATTTAATGAAAGTTTAAGGGTCA
* * * *
56076056 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATAAAATTTAA-GAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGGTCAAAATAAAATTTAATG-AAAGTTTAAGGGTCA
56076116 AAATGTAATTT
1 AAATGTAATTT
56076127 TTATTTTTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 18 0.32
60 39 0.68
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGGTCAAAATAAAATTTAATGAAAGTTTAAGGGTCA
Found at i:56076140 original size:14 final size:13
Alignment explanation
Indices: 56076121--56076154 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
56076111 GGTCAAAATG
56076121 TAATTTTTATTTTT
1 TAATTTTT-TTTTT
56076135 TAATTTTTTTTTT
1 TAATTTTTTTTTT
*
56076148 AAATTTT
1 TAATTTT
56076155 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TAATTTTTTTTTT
Found at i:56076345 original size:52 final size:52
Alignment explanation
Indices: 56076235--56076381 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
56076225 ATACCGATAT
* *
56076235 CATATCCCAGATATGGTCTTATAC-AGAATCACATTATCACATCACACCGATGC
1 CATAGCCCAGATATGGTCTTATACGGGAA-CACA-TATCACATCACACCGATGC
* **
56076288 CATAGCCCAGTTATGGTCTTATACGGGAACACATATCACATTGCACCGATGC
1 CATAGCCCAGATATGGTCTTATACGGGAACACATATCACATCACACCGATGC
* *
56076340 CATAGCCCAGCTATGGTCTTATACGGGCACACATATCACATC
1 CATAGCCCAGATATGGTCTTATACGGGAACACATATCACATC
56076382 TTTTCCGTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
52 56 0.66
53 26 0.31
54 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (52 bp):
CATAGCCCAGATATGGTCTTATACGGGAACACATATCACATCACACCGATGC
Found at i:56079058 original size:21 final size:22
Alignment explanation
Indices: 56079032--56079082 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
56079022 CCTATAGCAT
**
56079032 GGGCGTGTCCC-AGGGTCACAC
1 GGGCGTGTCCCTAGGACCACAC
* *
56079053 GGGCGTGCCCCTTGGACCACAC
1 GGGCGTGTCCCTAGGACCACAC
56079075 GGGCGTGT
1 GGGCGTGT
56079083 GAGCCCTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.12, C:0.33, G:0.39, T:0.16
Consensus pattern (22 bp):
GGGCGTGTCCCTAGGACCACAC
Found at i:56079684 original size:30 final size:30
Alignment explanation
Indices: 56079648--56079706 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
56079638 TGCAGATAAG
*
56079648 GATTTGGATAATGAGAAGGGTAAGGAAAAA
1 GATTTGGATAATGAGAAAGGTAAGGAAAAA
56079678 GATTTGGATAATGAGAAAGGTAAGGAAAA
1 GATTTGGATAATGAGAAAGGTAAGGAAAA
56079707 TGAATATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.20
Consensus pattern (30 bp):
GATTTGGATAATGAGAAAGGTAAGGAAAAA
Found at i:56080602 original size:20 final size:18
Alignment explanation
Indices: 56080549--56080603 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
56080539 TTTTAAAAAT
*
56080549 AATATATTTTTATTTATA
1 AATATATTTTTATTTTTA
*
56080567 AA-ATATTTATAATTTTTA
1 AATATATTT-TTATTTTTA
56080585 ATATATATTTTTAGTTTTT
1 A-ATATATTTTTA-TTTTT
56080604 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.20
18 10 0.33
19 3 0.10
20 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATATATTTTTATTTTTA
Found at i:56081625 original size:10 final size:11
Alignment explanation
Indices: 56081594--56081626 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
56081584 CGGCCCGCCC
56081594 ATATTAATTTT
1 ATATTAATTTT
*
56081605 ATATTATTTTT
1 ATATTAATTTT
56081616 ATA-TAATTTT
1 ATATTAATTTT
56081626 A
1 A
56081627 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:56081793 original size:30 final size:30
Alignment explanation
Indices: 56081750--56081811 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
56081740 CTTAACAAGA
* *
56081750 AAATGTCTCTAAAATAATAATAAAATTAAC
1 AAATGTATCTAAAATAATAAAAAAATTAAC
*
56081780 AAATGTATTTAAAATAATAAAAAAATTAAC
1 AAATGTATCTAAAATAATAAAAAAATTAAC
56081810 AA
1 AA
56081812 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTATCTAAAATAATAAAAAAATTAAC
Found at i:56083420 original size:15 final size:15
Alignment explanation
Indices: 56083400--56083429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56083390 CATTTTATTT
*
56083400 ATATTAGGATAATTA
1 ATATTAAGATAATTA
56083415 ATATTAAGATAATTA
1 ATATTAAGATAATTA
56083430 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:56083457 original size:27 final size:26
Alignment explanation
Indices: 56083396--56083458 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
56083386 ACTCCATTTT
56083396 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
56083423 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
56083451 ATTTTATT
1 ATTTTATT
56083459 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:56083473 original size:10 final size:10
Alignment explanation
Indices: 56083454--56083485 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
56083444 TTTTAGGATT
56083454 TTAT-TTTAA
1 TTATCTTTAA
56083463 TTATCTTTAA
1 TTATCTTTAA
56083473 TTATCTTTAA
1 TTATCTTTAA
56083483 TTA
1 TTA
56083486 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:56088978 original size:38 final size:38
Alignment explanation
Indices: 56088935--56089011 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
56088925 AGACACACGT
* * *
56088935 CCGTGTCAATGTTCCGTGTCCTTCACACGGCCACGACA
1 CCGTGTCAATGTCCCGTGTCCCTCACACGACCACGACA
*
56088973 CCGTGTCAATGTCCCGTGTCCCTCACACGACCACTACA
1 CCGTGTCAATGTCCCGTGTCCCTCACACGACCACGACA
56089011 C
1 C
56089012 GCTCGTGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.19, C:0.40, G:0.18, T:0.22
Consensus pattern (38 bp):
CCGTGTCAATGTCCCGTGTCCCTCACACGACCACGACA
Found at i:56092755 original size:63 final size:64
Alignment explanation
Indices: 56092685--56092804 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 64
56092675 TTGTGAAACT
* * * *
56092685 AAAATTTATGAATCAATTCAGCATAATTAACTTAAAA-A-ATCAAATGCAATATATTTGGAAAGA
1 AAAATTTATAAATAAATGCAACATAATTAA-TTAAAATATATCAAATGCAATATATTTGGAAAGA
* *
56092748 AAAATTTATAAATAAATGCAACATAATTGATTAAAATATATTAAATGCAATATATTT
1 AAAATTTATAAATAAATGCAACATAATTAATTAAAATATATCAAATGCAATATATTT
56092805 TAATAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
62 6 0.12
63 26 0.53
64 17 0.35
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (64 bp):
AAAATTTATAAATAAATGCAACATAATTAATTAAAATATATCAAATGCAATATATTTGGAAAGA
Found at i:56093182 original size:21 final size:22
Alignment explanation
Indices: 56093132--56093183 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
56093122 TTGCTGTAGG
* *
56093132 ACAATCCTTAGAAGCATGAAGC
1 ACAATCCTCAGAACCATGAAGC
56093154 AC-ATCCTCAGAACCATGAA-C
1 ACAATCCTCAGAACCATGAAGC
*
56093174 ACAAACCTCA
1 ACAATCCTCA
56093184 CATGCTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.12
21 21 0.81
22 2 0.08
ACGTcount: A:0.42, C:0.31, G:0.12, T:0.15
Consensus pattern (22 bp):
ACAATCCTCAGAACCATGAAGC
Found at i:56207393 original size:43 final size:42
Alignment explanation
Indices: 56207304--56207412 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
56207294 TAAGATTACG
* *
56207304 TGTAAGACCATA-TCTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
* * *
56207346 TGTAAGACCATAGTTGGGCTATTGGCGTCGATATGAG-GTCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
56207389 TGTAAGACCATAGCTGGGATATGG
1 TGTAAGACCATAGTTGGGATATGG
56207413 AATTGGTATG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:56208406 original size:13 final size:13
Alignment explanation
Indices: 56208388--56208417 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56208378 GACACTGCCA
56208388 TGTGTCTCGGCCG
1 TGTGTCTCGGCCG
*
56208401 TGTGTCTGGGCCG
1 TGTGTCTCGGCCG
56208414 TGTG
1 TGTG
56208418 AAGGACACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.43, T:0.33
Consensus pattern (13 bp):
TGTGTCTCGGCCG
Found at i:56211421 original size:21 final size:22
Alignment explanation
Indices: 56211395--56211445 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
56211385 CCTATAGCAT
**
56211395 GGGCGTGTCCC-AGGGTCACAC
1 GGGCGTGTCCCTAGGACCACAC
* *
56211416 GGGCGTGCCCCTTGGACCACAC
1 GGGCGTGTCCCTAGGACCACAC
56211438 GGGCGTGT
1 GGGCGTGT
56211446 GAGCCCTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.12, C:0.33, G:0.39, T:0.16
Consensus pattern (22 bp):
GGGCGTGTCCCTAGGACCACAC
Found at i:56212045 original size:30 final size:30
Alignment explanation
Indices: 56212009--56212067 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
56211999 TGCAGATAAG
*
56212009 GATTTGGATAATGAGAAGGGTAAGGAAAAA
1 GATTTGGATAATGAGAAAGGTAAGGAAAAA
56212039 GATTTGGATAATGAGAAAGGTAAGGAAAA
1 GATTTGGATAATGAGAAAGGTAAGGAAAA
56212068 TGAATATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.20
Consensus pattern (30 bp):
GATTTGGATAATGAGAAAGGTAAGGAAAAA
Found at i:56212961 original size:20 final size:18
Alignment explanation
Indices: 56212908--56212962 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
56212898 TTTTAAAAAT
*
56212908 AATATATTTTTATTTATA
1 AATATATTTTTATTTTTA
*
56212926 AA-ATATTTATAATTTTTA
1 AATATATTT-TTATTTTTA
56212944 ATATATATTTTTAGTTTTT
1 A-ATATATTTTTA-TTTTT
56212963 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.20
18 10 0.33
19 3 0.10
20 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATATATTTTTATTTTTA
Found at i:56213981 original size:10 final size:11
Alignment explanation
Indices: 56213950--56213982 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
56213940 CGGCCCGCCC
56213950 ATATTAATTTT
1 ATATTAATTTT
*
56213961 ATATTATTTTT
1 ATATTAATTTT
56213972 ATA-TAATTTT
1 ATATTAATTTT
56213982 A
1 A
56213983 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:56214149 original size:30 final size:30
Alignment explanation
Indices: 56214106--56214167 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
56214096 CTTAACAAGA
* *
56214106 AAATGTCTCTAAAATAATAATAAAATTAAC
1 AAATGTATCTAAAATAATAAAAAAATTAAC
*
56214136 AAATGTATTTAAAATAATAAAAAAATTAAC
1 AAATGTATCTAAAATAATAAAAAAATTAAC
56214166 AA
1 AA
56214168 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTATCTAAAATAATAAAAAAATTAAC
Found at i:56215775 original size:15 final size:15
Alignment explanation
Indices: 56215755--56215784 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56215745 CATTTTATTT
*
56215755 ATATTAGGATAATTA
1 ATATTAAGATAATTA
56215770 ATATTAAGATAATTA
1 ATATTAAGATAATTA
56215785 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:56215812 original size:27 final size:26
Alignment explanation
Indices: 56215751--56215813 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
56215741 ACTCCATTTT
56215751 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
56215778 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
56215806 ATTTTATT
1 ATTTTATT
56215814 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:56221333 original size:38 final size:38
Alignment explanation
Indices: 56221290--56221366 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
56221280 AGACACACGT
* * *
56221290 CCGTGTCAATGTTCCGTGTCCTTCACACGGCCACGACA
1 CCGTGTCAATGTCCCGTGTCCCTCACACGACCACGACA
*
56221328 CCGTGTCAATGTCCCGTGTCCCTCACACGACCACTACA
1 CCGTGTCAATGTCCCGTGTCCCTCACACGACCACGACA
56221366 C
1 C
56221367 GCTCGTGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.19, C:0.40, G:0.18, T:0.22
Consensus pattern (38 bp):
CCGTGTCAATGTCCCGTGTCCCTCACACGACCACGACA
Found at i:56225103 original size:63 final size:64
Alignment explanation
Indices: 56225033--56225152 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 64
56225023 TTGTGAAACT
* * * *
56225033 AAAATTTATGAATCAATTCAGCATAATTAACTTAAAA-A-ATCAAATGCAATATATTTGGAAAGA
1 AAAATTTATAAATAAATGCAACATAATTAA-TTAAAATATATCAAATGCAATATATTTGGAAAGA
* *
56225096 AAAATTTATAAATAAATGCAACATAATTGATTAAAATATATTAAATGCAATATATTT
1 AAAATTTATAAATAAATGCAACATAATTAATTAAAATATATCAAATGCAATATATTT
56225153 TAATAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
62 6 0.12
63 26 0.53
64 17 0.35
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (64 bp):
AAAATTTATAAATAAATGCAACATAATTAATTAAAATATATCAAATGCAATATATTTGGAAAGA
Found at i:56227848 original size:18 final size:18
Alignment explanation
Indices: 56227825--56227862 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
56227815 CTCATATTCT
56227825 TCCATAAAATTTCAGAAA
1 TCCATAAAATTTCAGAAA
56227843 TCCATAAAATTTCAGAAA
1 TCCATAAAATTTCAGAAA
56227861 TC
1 TC
56227863 AACATGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (18 bp):
TCCATAAAATTTCAGAAA
Found at i:56243757 original size:21 final size:21
Alignment explanation
Indices: 56243733--56243775 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
56243723 TTCAAATAGG
*
56243733 TACCTGTACCACTCAAAACAT
1 TACCTGTACCACACAAAACAT
*
56243754 TACCTGTACTACACAAAACAT
1 TACCTGTACCACACAAAACAT
56243775 T
1 T
56243776 GTTATACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.26
Consensus pattern (21 bp):
TACCTGTACCACACAAAACAT
Found at i:56244037 original size:45 final size:44
Alignment explanation
Indices: 56243930--56244187 Score: 209
Period size: 45 Copynumber: 5.5 Consensus size: 44
56243920 AGGTCGACGC
* *
56243930 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACT-G---ACACATCT-CGTAGCCGATG
56243979 CCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATG
* *
56244025 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGGCGATG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTAGCCGATG
* * *
56244070 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACACATCTCGTA-GCCGATG
* * * * **
56244116 CCATGTCTCAGACATGGTCTTACACTGACTC-TCATAATGTGGCTAATG
1 -CATGTCCCAGACAT-GTCTTACACTGACACATC-T--CGTAGCCGATG
56244164 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
56244188 AGCACACAAA
Statistics
Matches: 180, Mismatches: 15, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
44 12 0.07
45 57 0.32
46 42 0.23
47 28 0.16
48 15 0.08
49 1 0.01
50 25 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:56244133 original size:137 final size:140
Alignment explanation
Indices: 56243930--56244187 Score: 380
Period size: 139 Copynumber: 1.9 Consensus size: 140
56243920 AGGTCGACGC
**
56243930 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGTCCCAGACATG
*
56243995 GTCTTACACTGACACATC-T-CGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACAT
65 GTCTTACACTGACAC-TCATACGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACAT
56244058 CTCGAGGCGATG
129 CTCGAGGCGATG
* *
56244070 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAATGCCGATGCCATGTCTCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACATGG
* * * *
56244133 TCTTACACTGACTCTCATAATGTGGCTAATGCATGTCCCAGACATGTCTTACACT
66 TCTTACACTGACACTCAT-ACGTAGCCAATGCATGTCCCAGACATGTCTTACACT
56244188 AGCACACAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
136 2 0.02
137 43 0.41
139 47 0.44
140 14 0.13
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACATGG
TCTTACACTGACACTCATACGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
CGAGGCGATG
Found at i:56244174 original size:94 final size:94
Alignment explanation
Indices: 56243928--56244195 Score: 311
Period size: 94 Copynumber: 2.9 Consensus size: 94
56243918 TGAGGTCGAC
* *
56243928 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCGTGCCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATA-AT-CGTGGCGATG-CATGTCCCAGAC
*
56243992 ATGGTCTTACACT-G-ACACATCTCGTAGCCGAT
62 AT-GTCTTACACTAGCACACATCTCATAGCCGAT
* * *
56244024 G-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCGATGCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGACTCT-CATAATCGTGGCGATGCATGTCCCAGACATG
* *
56244085 TCTTACACTAGCTCTCATCTCA-ATGCCGAT
65 TCTTACACTAGCACACATCTCATA-GCCGAT
* *
56244115 GCCATGTCTCAGACATGGTCTTACACTGACTCTCATAAT-GTGGCTAATGCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGTGGC-GATGCATGTCCCAGACATG
56244179 TCTTACACTAGCACACA
65 TCTTACACTAGCACACA
56244196 AATAACCCGA
Statistics
Matches: 147, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
89 10 0.07
90 16 0.11
91 22 0.15
92 14 0.10
93 21 0.14
94 49 0.33
95 14 0.10
96 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGTGGCGATGCATGTCCCAGACATGT
CTTACACTAGCACACATCTCATAGCCGAT
Found at i:56244679 original size:30 final size:30
Alignment explanation
Indices: 56244634--56244693 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
56244624 TATTTTATTA
* *
56244634 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAAATTTATTATTATTTTAAAGGCATTTG
* *
56244664 TTAAATTTATTATTATTTTAGAGGTATTTG
1 TTAAATTTATTATTATTTTAAAGGCATTTG
56244694 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAAATTTATTATTATTTTAAAGGCATTTG
Found at i:56248427 original size:14 final size:14
Alignment explanation
Indices: 56248401--56248430 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
56248391 GTATTCGACC
56248401 AAGGAAAGAAAAAT
1 AAGGAAAGAAAAAT
56248415 AAGGAGAAGAAAAAT
1 AAGGA-AAGAAAAAT
56248430 A
1 A
56248431 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (14 bp):
AAGGAAAGAAAAAT
Found at i:56254041 original size:42 final size:42
Alignment explanation
Indices: 56253962--56254043 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
56253952 GTTGGTGCCA
* * * *
56253962 ATGCCATGTCCCAGACGTGATCTTACACGAGACCTCATATTG
1 ATGCCATGTCCCAAACATGATCTTACACAAAACCTCATATTG
* *
56254004 ATGCCATGTCCCAAACATGTTCTTACACAAAATCTCATAT
1 ATGCCATGTCCCAAACATGATCTTACACAAAACCTCATAT
56254044 CAACGCCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAAACATGATCTTACACAAAACCTCATATTG
Found at i:56254052 original size:42 final size:42
Alignment explanation
Indices: 56253964--56254052 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
56253954 TGGTGCCAAT
* * * * ** *
56253964 GCCATGTCCCAGACGTGATCTTACACGAGACCTCATATTGAT
1 GCCATGTCCCAAACATGATCTTACACAAAACCTCATATCAAC
* *
56254006 GCCATGTCCCAAACATGTTCTTACACAAAATCTCATATCAAC
1 GCCATGTCCCAAACATGATCTTACACAAAACCTCATATCAAC
56254048 GCCAT
1 GCCAT
56254053 ATCCTAGGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (42 bp):
GCCATGTCCCAAACATGATCTTACACAAAACCTCATATCAAC
Found at i:56255445 original size:13 final size:13
Alignment explanation
Indices: 56255429--56255461 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56255419 TTTAATTAAA
*
56255429 TTAGTTAATTAGT
1 TTAGATAATTAGT
56255442 TTAGATAATTAGT
1 TTAGATAATTAGT
56255455 TTA-ATAA
1 TTAGATAA
56255462 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:56258649 original size:19 final size:21
Alignment explanation
Indices: 56258625--56258664 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
56258615 TCAGGTTGTA
56258625 TAAAT-ATTTAAAA-CTCTTT
1 TAAATAATTTAAAATCTCTTT
56258644 TAAATAATTTAAAATCTCTTT
1 TAAATAATTTAAAATCTCTTT
56258665 CCTTTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATAATTTAAAATCTCTTT
Found at i:56258792 original size:49 final size:48
Alignment explanation
Indices: 56258706--56258834 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 48
56258696 TTGAATTTTA
* * *
56258706 AAAAGTCTTTTATATAATAATTTAAA-TTCTATTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAA-TTAAATTTCTATTAATTAT-TATTTATCT
* *
56258754 AAAACTCTTTTAAATAATAATTAAATTATGTTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATTAAATT-TCTATTAATTATTATTTATCT
56258803 AAAACTCTTTTAAATAATAATTAAA-TTCTATT
1 AAAACTCTTTTAAATAATAATTAAATTTCTATT
56258835 TCCTTATCTG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 9 0.13
48 21 0.30
49 41 0.58
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTAAATTTCTATTAATTATTATTTATCT
Found at i:56260894 original size:46 final size:47
Alignment explanation
Indices: 56260844--56261013 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
56260834 AGCATCCGAG
56260844 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCAGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCAGAA
* * * * *
56260890 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC-TCAGAA
* * * * *
56260937 CTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCA-AG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCAGAA
56260983 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56261014 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 53 0.54
47 28 0.29
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCAGAA
Found at i:56260994 original size:93 final size:93
Alignment explanation
Indices: 56260835--56261005 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
56260825 GGATGGTTGA
* * * *
56260835 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCAGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAGT
56260900 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
56260928 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCA-AGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCAGAACTCGTTGAG
56260992 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
56261006 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56265613 original size:13 final size:13
Alignment explanation
Indices: 56265592--56265653 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
56265582 TTTAAACCAA
*
56265592 ACTTCTCAAAAAC
1 ACTTTTCAAAAAC
*
56265605 ACTTTTCAAAAGC
1 ACTTTTCAAAAAC
* * *
56265618 ACTTTTCCAGATC
1 ACTTTTCAAAAAC
*
56265631 ATTTTTC-AAAAC
1 ACTTTTCAAAAAC
56265643 ACTTTTCAAAA
1 ACTTTTCAAAA
56265654 GCAATACTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 9 0.23
13 30 0.77
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:56265648 original size:12 final size:12
Alignment explanation
Indices: 56265600--56265653 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
56265590 AAACTTCTCA
56265600 AAAACACTTTTC
1 AAAACACTTTTC
56265612 AAAAGCACTTTTCC
1 AAAA-CACTTTT-C
* * *
56265626 AGATCATTTTTC
1 AAAACACTTTTC
56265638 AAAACACTTTTC
1 AAAACACTTTTC
56265650 AAAA
1 AAAA
56265654 GCAATACTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 18 0.53
13 13 0.38
14 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (12 bp):
AAAACACTTTTC
Found at i:56268349 original size:21 final size:21
Alignment explanation
Indices: 56268291--56268351 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
56268281 CACTTAAAAC
* *
56268291 AGGGC-ACATGCCCGTATGGA
1 AGGGCAACATGCCAGTGTGGA
56268311 AGGGCAACATGCCAGTGTGGA
1 AGGGCAACATGCCAGTGTGGA
* *
56268332 ATGGCAACATGCCTGTGTGG
1 AGGGCAACATGCCAGTGTGG
56268352 CCCCATTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.25, C:0.21, G:0.36, T:0.18
Consensus pattern (21 bp):
AGGGCAACATGCCAGTGTGGA
Done.