Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, whole genome shotgun sequence
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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 14
Found at i:2684402 original size:84 final size:84
Alignment explanation
Indices: 2684282--2684452 Score: 238
Period size: 84 Copynumber: 2.0 Consensus size: 84
2684272 TCTGTCAGCC
* * *
2684282 AAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACAACATTTGC-AGCATACCTCAAGGCGA
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACAACATTTGCTA-CATAACTCAAGGCAA
*
2684346 GAAGGGTTATCTT-CCAACAA
65 GAAGGGCTAT-TTGCCAACAA
* **
2684366 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTGCTACATAACTCAAGGCAAG
1 AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACAACATTTGCTACATAACTCAAGGCAAG
*
2684431 AAGGGCTATTTGCTAACAA
66 AAGGGCTATTTGCCAACAA
2684450 AAG
1 AAG
2684453 TGTCGAAACG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
83 2 0.03
84 74 0.96
85 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (84 bp):
AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACAACATTTGCTACATAACTCAAGGCAAG
AAGGGCTATTTGCCAACAA
Found at i:2688881 original size:84 final size:84
Alignment explanation
Indices: 2688154--2688905 Score: 806
Period size: 84 Copynumber: 9.0 Consensus size: 84
2688144 ATCATCTACA
* * *
2688154 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGTG
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
* *
2688219 AGAAAGGCTATCTACCAAC
66 AGAAGGGCTATCTGCCAAC
* *
2688238 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
* *
2688303 AGAAGGGCTATTTGCCAAT
66 AGAAGGGCTATCTGCCAAC
* * * *
2688322 AAAAGACCTTCGAGTTCGACTACGCGCAGATCCAAGGTACATCATTTACACCATAGCTCAAGGCG
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
*
2688387 AGAAGGGCTATCTTCCAAC
66 AGAAGGGCTATCTGCCAAC
* * **
2688406 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGAT
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
* * *
2688471 AGAAGGGTTATTTTCCAAC
66 AGAAGGGCTATCTGCCAAC
* *
2688490 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCT
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
* ** * *
2688555 AAAAGGATTATATGTCAAC
66 AGAAGGGCTATCTGCCAAC
* * * * * * * ** * * *
2688574 -AAAGGCCTTCGAGTTAGATTACACTCAGCTCAAAGACACATCATTTGCAGTATAGATTAAGTCG
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
*
2688638 ATAAGGGCTATCTGCCAAC
66 AGAAGGGCTATCTGCCAAC
* ** * * *
2688657 CAAAGACCTTCGAGTTATATTACACTCAGCT-CAAGGGCACATCATTTACAACATAACTCAAGGC
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAACATAGCTCAAGGC
* * **
2688721 TAGAAGGGTTATCTGTTAAC
65 GAGAAGGGCTATCTGCCAAC
* * * * *
2688741 -CAAGACCTTCAAGTTCGATTACACTCAG-----AGGCACATCATTTACAGCATAGCTCAAGGCG
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
2688800 AGAAGGGCTATCTGCCAAC
66 AGAAGGGCTATCTGCCAAC
* *** * **
2688819 AAAAGACCTTCGAGTTCGATTATATTCAGCT-CAAAG-ACATCAAATTTACAGTATAGCTCAAGG
1 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC--ATTTACAACATAGCTCAAGG
* *
2688882 C-ATGAAGGGATATCTGTCAAC
64 CGA-GAAGGGCTATCTGCCAAC
2688903 AAA
1 AAA
2688906 GTTATCGAGT
Statistics
Matches: 572, Mismatches: 86, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
78 43 0.08
79 25 0.04
82 5 0.01
83 93 0.16
84 406 0.71
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (84 bp):
AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAGCTCAAGGCG
AGAAGGGCTATCTGCCAAC
Found at i:2689476 original size:2 final size:2
Alignment explanation
Indices: 2689469--2689513 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2689459 TTATACATAC
2689469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2689511 AT A
1 AT A
2689514 GTTTGCAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2689547 original size:35 final size:33
Alignment explanation
Indices: 2689503--2689811 Score: 179
Period size: 35 Copynumber: 9.2 Consensus size: 33
2689493 ATATATATAT
**
2689503 ATATATATATAGTTTGCAAACAGTTTTGAAAATA
1 ATATATATATAGTTTTAAAACA-TTTTGAAAATA
* *
2689537 AGTATATATATATTTTTAAAAACATTTTGAAAATGT
1 A-TATATATATAGTTTT-AAAACATTTTGAAAAT-A
*
2689573 ATATAATATATAATTTTTAAAACACTTTTGAAAACT-
1 ATAT-ATATAT-AGTTTTAAAACA-TTTTGAAAA-TA
2689609 ATATA-ATATAGTTTTTAAAACATTTTAGAAAATA
1 ATATATATATAG-TTTTAAAACATTTT-GAAAATA
2689643 TATATAATATATAGTTTTGAAAACA-TTT----AT-
1 -ATAT-ATATATAGTTTT-AAAACATTTTGAAAATA
2689673 ATAT-TATATAGTTTTTTAAAAACATTTTTGAAAACT-
1 ATATATATATAG--TTTT-AAAACA-TTTTGAAAA-TA
*
2689709 -TATATATAT--TTTTAAAAAACATTTTG--GA-A
1 ATATATATATAGTTTT--AAAACATTTTGAAAATA
*
2689738 A-ATATATATAGTTTTAAAATAGTTTTTGAAAAT-
1 ATATATATATAGTTTTAAAACA--TTTTGAAAATA
* * *
2689771 ATAT-TATATGGTTTTGAAAAGCATTTTTAAAATC
1 ATATATATATAGTTTT-AAAA-CATTTTGAAAATA
2689805 ATATATA
1 ATATATA
2689812 AAATATAATT
Statistics
Matches: 224, Mismatches: 12, Indels: 77
0.72 0.04 0.25
Matches are distributed among these distances:
27 7 0.03
29 27 0.12
30 1 0.00
31 14 0.06
32 9 0.04
33 34 0.15
34 30 0.13
35 38 0.17
36 36 0.16
37 27 0.12
38 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (33 bp):
ATATATATATAGTTTTAAAACATTTTGAAAATA
Found at i:2689575 original size:33 final size:32
Alignment explanation
Indices: 2689502--2689811 Score: 190
Period size: 36 Copynumber: 9.2 Consensus size: 32
2689492 TATATATATA
* **
2689502 TATATATATATAGTTTGCAAACAGTTTTGAAAAT
1 TATATATATAT-TTTTAAAAACA-TTTTGAAAAT
2689536 AAGTATATATATATTTTTAAAAACATTTTGAAAAT
1 ---TATATATATATTTTTAAAAACATTTTGAAAAT
* *
2689571 GTATATAATATATAATTTTTAAAACACTTTTGAAAAC
1 -TATAT-ATATAT--TTTTAAAAACA-TTTTGAAAAT
2689608 TATATAATATAGTTTTT-AAAACATTTTAGAAAAT
1 TATAT-ATATA-TTTTTAAAAACATTTT-GAAAAT
* *
2689642 ATATATAATATATAGTTTTGAAAACA-TTT-ATATAT
1 -TATAT-ATATAT--TTTTAAAAACATTTTGA-AAAT
*
2689677 TATATA-GT-TTTTTAAAAACATTTTTGAAAACT
1 TATATATATATTTTTAAAAACA-TTTTGAAAA-T
* *
2689709 TATATATAT-TTTTAAAAAACATTTTGGAAA-
1 TATATATATATTTTTAAAAACATTTTGAAAAT
* **
2689739 -ATATATATAGTTTTAAAATAGTTTTTGAAAA-
1 TATATATATATTTTTAAAA-ACATTTTGAAAAT
* *
2689770 TATAT-TATATGGTTTTGAAAAGCATTTTTAAAAT
1 TATATATATAT--TTTT-AAAAACATTTTGAAAAT
*
2689804 CATATATA
1 TATATATA
2689812 AAATATAATT
Statistics
Matches: 225, Mismatches: 24, Indels: 50
0.75 0.08 0.17
Matches are distributed among these distances:
29 18 0.08
30 7 0.03
31 19 0.08
32 21 0.09
33 35 0.16
34 32 0.14
35 30 0.13
36 36 0.16
37 27 0.12
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (32 bp):
TATATATATATTTTTAAAAACATTTTGAAAAT
Found at i:2689584 original size:71 final size:70
Alignment explanation
Indices: 2689497--2689667 Score: 213
Period size: 71 Copynumber: 2.4 Consensus size: 70
2689487 ATATATATAT
* *
2689497 ATATATATATATATATAGTTTGCAAACAGTTTTGAAAA-TAAGTATATATATA-TTTTTAAAAAC
1 ATATATATA-ATATATAGTTTGAAAACACTTTTGAAAACT-A-TATA-ATATAGTTTTT-AAAAC
2689560 ATTTT-GAAA
61 ATTTTAGAAA
* * *
2689569 ATGTATATAATATATAATTTTTAAAACACTTTTGAAAACTATATAATATAGTTTTTAAAACATTT
1 ATATATATAATATAT-AGTTTGAAAACACTTTTGAAAACTATATAATATAGTTTTTAAAACATTT
2689634 TAGAAA
65 TAGAAA
2689640 ATATATATAATATATAGTTTTGAAAACA
1 ATATATATAATATATAG-TTTGAAAACA
2689668 TTTATATATT
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
70 16 0.19
71 42 0.49
72 27 0.31
73 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (70 bp):
ATATATATAATATATAGTTTGAAAACACTTTTGAAAACTATATAATATAGTTTTTAAAACATTTT
AGAAA
Found at i:2689666 original size:37 final size:36
Alignment explanation
Indices: 2689497--2689670 Score: 189
Period size: 37 Copynumber: 4.9 Consensus size: 36
2689487 ATATATATAT
*
2689497 ATATATATATATATATAG-TTTGCAAACAGTTTTGAAA
1 ATATATATA-ATATATAGTTTTGAAAACA-TTTTGAAA
* *
2689534 ATA-AGTAT-ATATATATTTTTAAAAACATTTTGAAA
1 ATATA-TATAATATATAGTTTTGAAAACATTTTGAAA
* * *
2689569 ATGTATATAATATATAATTTTTAAAACACTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAACA-TTTTGAAA
* *
2689606 A-CTATAT-A-ATATAGTTTTTAAAACATTTTAGAAA
1 ATATATATAATATATAGTTTTGAAAACATTTT-GAAA
2689640 ATATATATAATATATAGTTTTGAAAACATTT
1 ATATATATAATATATAGTTTTGAAAACATTT
2689671 ATATATTATA
Statistics
Matches: 118, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
33 4 0.03
34 21 0.18
35 26 0.22
36 33 0.28
37 34 0.29
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTGAAAACATTTTGAAA
Found at i:2689673 original size:25 final size:28
Alignment explanation
Indices: 2689631--2689687 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
2689621 TTTTAAAACA
*
2689631 TTTTAG-AAA-ATATATATAATATATAG
1 TTTTAGAAAACATATATATATTATATAG
*
2689657 TTTT-GAAAACATTTATATATTATATAG
1 TTTTAGAAAACATATATATATTATATAG
2689684 TTTT
1 TTTT
2689688 TTAAAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 7 0.26
27 19 0.70
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (28 bp):
TTTTAGAAAACATATATATATTATATAG
Found at i:2689689 original size:29 final size:27
Alignment explanation
Indices: 2689643--2689699 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
2689633 TTAGAAAATA
*
2689643 TATATAATATATAGTTTTGAAAACATT
1 TATATAATATATAGTTTTAAAAACATT
*
2689670 TATATATTATATAGTTTTTTAAAAACATT
1 TATATAATATATAG--TTTTAAAAACATT
2689699 T
1 T
2689700 TTGAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 13 0.50
29 13 0.50
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (27 bp):
TATATAATATATAGTTTTAAAAACATT
Found at i:2689848 original size:19 final size:18
Alignment explanation
Indices: 2689826--2689908 Score: 73
Period size: 18 Copynumber: 4.4 Consensus size: 18
2689816 ATAATTTTAA
2689826 ATTT-TTTTTTAATTTTTTT
1 ATTTATTTTTT-A-TTTTTT
2689845 ATTT-TTTATTTATTTTTT
1 ATTTATTT-TTTATTTTTT
* *
2689863 ATTTATTTGTTATTTGTT
1 ATTTATTTTTTATTTTTT
2689881 ATTTATTGTTTTATCTTTCTT
1 ATTTATT-TTTTAT-TTT-TT
2689902 -TTTATTT
1 ATTTATTT
2689909 ATCTCGTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
18 25 0.45
19 17 0.31
20 11 0.20
21 2 0.04
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (18 bp):
ATTTATTTTTTATTTTTT
Found at i:2689856 original size:11 final size:11
Alignment explanation
Indices: 2689826--2689887 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
2689816 ATAATTTTAA
2689826 ATTTTTT-TTT
1 ATTTTTTATTT
*
2689836 A-ATTTT-TTT
1 ATTTTTTATTT
2689845 ATTTTTTATTT
1 ATTTTTTATTT
2689856 ATTTTTTATTT
1 ATTTTTTATTT
*
2689867 ATTTGTTATTT
1 ATTTTTTATTT
* *
2689878 GTTATTTATT
1 ATTTTTTATT
2689888 GTTTTATCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.18
10 5 0.11
11 31 0.70
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:2691142 original size:20 final size:20
Alignment explanation
Indices: 2691107--2691164 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
2691097 CTATCATTCT
2691107 TTTTCTTTTATTTATTTTCCC
1 TTTTCTTTT-TTTATTTTCCC
2691128 TTTTCTTTTTTTA-TTTCCC
1 TTTTCTTTTTTTATTTTCCC
*
2691147 TTTATATTTATTTTATTT
1 TTT-TCTTT-TTTTATTT
2691165 CTTTATCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 9 0.27
20 8 0.24
21 14 0.42
22 2 0.06
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCTTTTTTTATTTTCCC
Found at i:2691146 original size:19 final size:20
Alignment explanation
Indices: 2691105--2691182 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 20
2691095 TACTATCATT
*
2691105 CTTTTTCTTTTATTTATTTTCC
1 CTTTATCTTTT-TTTA-TTTCC
2691127 CTTT-TCTTTTTTTATTTCC
1 CTTTATCTTTTTTTATTTCC
*
2691146 CTTTATATTTATTTTATTT--
1 CTTTATCTTT-TTTTATTTCC
*
2691165 CTTTATCTATTTTTATTT
1 CTTTATCTTTTTTTATTT
2691183 TATTCTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 8 0.16
19 17 0.33
20 8 0.16
21 14 0.27
22 4 0.08
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTATCTTTTTTTATTTCC
Found at i:2691196 original size:27 final size:29
Alignment explanation
Indices: 2691147--2691211 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
2691137 TTTATTTCCC
2691147 TTTATATTTATTTTATTTCTTTATCTATT
1 TTTATATTTATTTTATTTCTTTATCTATT
*
2691176 TTTAT-TTTATTCTT-TTT-TTTATTTATT
1 TTTATATTTATT-TTATTTCTTTATCTATT
*
2691203 GTATATATT
1 -TTTATATT
2691212 ATTATCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 9 0.29
28 13 0.42
29 9 0.29
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTATATTTATTTTATTTCTTTATCTATT
Found at i:2691198 original size:23 final size:23
Alignment explanation
Indices: 2691147--2691202 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
2691137 TTTATTTCCC
*
2691147 TTTATATTTATTTTATTTCTTTA
1 TTTATTTTTATTTTATTTCTTTA
*
2691170 TCTATTTTTATTTTA-TTCTTT-
1 TTTATTTTTATTTTATTTCTTTA
2691191 TTT-TTATTTATT
1 TTTATT-TTTATT
2691203 GTATATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 6 0.21
23 13 0.45
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATTTTTATTTTATTTCTTTA
Found at i:2691278 original size:14 final size:14
Alignment explanation
Indices: 2691248--2691303 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
2691238 TGTTTTTTTA
2691248 TTTTATTTTCATTTC
1 TTTTATTTTC-TTTC
2691263 TTTTATTTTCTTTC
1 TTTTATTTTCTTTC
*
2691277 TTTTATTTTCTTTA
1 TTTTATTTTCTTTC
*
2691291 TTTCATTTT-TTTC
1 TTTTATTTTCTTTC
2691304 CTTCAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 3 0.08
14 25 0.66
15 10 0.26
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTCTTTC
Found at i:2692492 original size:41 final size:40
Alignment explanation
Indices: 2692366--2692493 Score: 96
Period size: 41 Copynumber: 3.1 Consensus size: 40
2692356 TTGAGTTTCT
*
2692366 TAATTTTAAATAAAATTAGATTTATATGTTGTGAGATGCAC
1 TAATTTTAAATAAAATTAG-TTTATATCTTGTGAGATGCAC
* ** * * * * * * ****
2692407 GAATTTTATTTATATTTTGTTTATA-CATTTTCAAATTTTT
1 TAATTTTAAATAAAATTAGTTTATATC-TTGTGAGATGCAC
2692447 TAATTTTAAATAAAATTAGTTTTATATCTTGTGAGATGCAC
1 TAATTTTAAATAAAATTAG-TTTATATCTTGTGAGATGCAC
2692488 TAATTT
1 TAATTT
2692494 GCTTTATATA
Statistics
Matches: 57, Mismatches: 27, Indels: 6
0.63 0.30 0.07
Matches are distributed among these distances:
40 25 0.44
41 31 0.54
42 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.50
Consensus pattern (40 bp):
TAATTTTAAATAAAATTAGTTTATATCTTGTGAGATGCAC
Found at i:2692737 original size:20 final size:20
Alignment explanation
Indices: 2692714--2692752 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2692704 TATGAATATA
2692714 TATTAAAAATATTAAAAAAC
1 TATTAAAAATATTAAAAAAC
* * *
2692734 TATTACAATTTTTAAAAAA
1 TATTAAAAATATTAAAAAA
2692753 TAAAAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTAAAAATATTAAAAAAC
Found at i:2692777 original size:25 final size:25
Alignment explanation
Indices: 2692749--2692808 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
2692739 CAATTTTTAA
**
2692749 AAAATAA-AAATATATTCCAAACTAT
1 AAAATAATAAAT-TATTAAAAACTAT
2692774 AAAATAATAAATTATTAAAAACTAT
1 AAAATAATAAATTATTAAAAACTAT
*
2692799 ATATATAATA
1 A-AAATAATA
2692809 TTTGTTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAATAATAAATTATTAAAAACTAT
Found at i:2699624 original size:15 final size:15
Alignment explanation
Indices: 2699594--2699623 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2699584 TTTTTTAAAA
2699594 TAAAAAATATTATTT
1 TAAAAAATATTATTT
2699609 TAAAAAATA-TATTT
1 TAAAAAATATTATTT
2699623 T
1 T
2699624 TTAACTCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAAAATATTATTT
Found at i:2701976 original size:61 final size:61
Alignment explanation
Indices: 2701881--2702040 Score: 230
Period size: 61 Copynumber: 2.6 Consensus size: 61
2701871 ACCGTAGTGC
* * * *
2701881 TATGACATATAAAGTGGTGCCCACCACCTGCACTAAGTTTACACTCTAGTGCTAATCCGGA
1 TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTTTACACTCTAGTGCTAATCCGAA
* * * *
2701942 TATGACACATAAGGTCGTGCCCACCTCATGCACTAAGTTTACACTCTAGTGTTGATCCGAA
1 TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTTTACACTCTAGTGCTAATCCGAA
* *
2702003 TAAGGCACATAAGGTCGTGCCCACCACCTGCACTAAGT
1 TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGT
2702041 GTCCTTACAC
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 87 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (61 bp):
TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTTTACACTCTAGTGCTAATCCGAA
Found at i:2706403 original size:22 final size:22
Alignment explanation
Indices: 2706375--2706432 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
2706365 CCATAACCAA
*
2706375 TCACTATTCCGGTCACCGATAG
1 TCACTATTCCGGTCACCGACAG
* *
2706397 TCACTATTTCGGTCACCGCCAG
1 TCACTATTCCGGTCACCGACAG
*
2706419 TCATTATTCACGGT
1 TCACTATTC-CGGT
2706433 GGCCGAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (22 bp):
TCACTATTCCGGTCACCGACAG
Found at i:2707302 original size:19 final size:19
Alignment explanation
Indices: 2707261--2707318 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
2707251 ATATAGTACT
* * *
2707261 TGATTTCTACTCTGAACTT
1 TGATTTCTATTCTGATCTC
*
2707280 TGATATCTATTCTGATCTC
1 TGATTTCTATTCTGATCTC
*
2707299 TGATTTCTGTTCTGATCTC
1 TGATTTCTATTCTGATCTC
2707318 T
1 T
2707319 ATTATGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.50
Consensus pattern (19 bp):
TGATTTCTATTCTGATCTC
Found at i:2708355 original size:20 final size:20
Alignment explanation
Indices: 2708326--2708399 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
2708316 GCAGCCTTCG
* * *
2708326 TGCATGGATGTACAGTAGGA
1 TGCATCGATGCACAGTATGA
2708346 TGCATCGATGCACAGCCT-TGA
1 TGCATCGATGCACAG--TATGA
*
2708367 TGCATCGATGCACAGAATGA
1 TGCATCGATGCACAGTATGA
2708387 TGCATCGATGCAC
1 TGCATCGATGCAC
2708400 TAATTGCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 29 0.62
21 17 0.36
22 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACAGTATGA
Found at i:2708362 original size:41 final size:41
Alignment explanation
Indices: 2708317--2708399 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
2708307 CTAGCCGTTG
* * *
2708317 CAGCCTTCG-TGCATGGATGTACAGTAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATGCACAGAAGGATGCATCGATGCA
*
2708358 CAGCCTTGATGCATCGATGCACAGAATGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
2708399 C
1 C
2708400 TAATTGCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:2708370 original size:21 final size:20
Alignment explanation
Indices: 2708344--2708399 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
2708334 TGTACAGTAG
**
2708344 GATGCATCGATGCACAGCCTT
1 GATGCATCGATGCACAG-AAT
2708365 GATGCATCGATGCACAGAAT
1 GATGCATCGATGCACAGAAT
2708385 GATGCATCGATGCAC
1 GATGCATCGATGCAC
2708400 TAATTGCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (20 bp):
GATGCATCGATGCACAGAAT
Found at i:2711896 original size:20 final size:20
Alignment explanation
Indices: 2711866--2711939 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
2711856 GTAGCCTTCG
*
2711866 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* **
2711886 TGCATCAATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
*
2711907 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
*
2711927 TGAATCGATGCAC
1 TGCATCGATGCAC
2711940 TAATTGCATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.61
21 17 0.39
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:2711903 original size:41 final size:41
Alignment explanation
Indices: 2711858--2711939 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
2711848 TAGCCGTTGT
* * *
2711858 AGCCTTCG-TGCATGGATGCACAGCAGGATGCATCAATGCAC
1 AGCCTT-GATGCATCGATGCACAGAAGGATGAATCAATGCAC
*
2711899 AGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCAC
1 AGCCTTGATGCATCGATGCACAGAAGGATGAATCAATGCAC
2711940 TAATTGCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (41 bp):
AGCCTTGATGCATCGATGCACAGAAGGATGAATCAATGCAC
Found at i:2712027 original size:21 final size:21
Alignment explanation
Indices: 2711961--2712058 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
2711951 GGTGTTTGAG
*
2711961 TGCATGGATGCACTGCATGG-
1 TGCATGGATGCACTGCAGGGA
*
2711981 TGCATCGATGCACT--AGTGCAGA
1 TGCATGGATGCACTGCAG-G--GA
2712003 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
* *
2712024 TGCATGGATGCACTACAGGGG
1 TGCATGGATGCACTGCAGGGA
2712045 TGCATGGATGCACT
1 TGCATGGATGCACT
2712059 TTGACACCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 13 0.19
21 36 0.54
22 13 0.19
23 1 0.01
24 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.22
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:2712049 original size:42 final size:42
Alignment explanation
Indices: 2711960--2712058 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
2711950 CGGTGTTTGA
* **
2711960 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCAGGGTGCATCGATGCACTACAGCAG
* * *
2712002 ATGCATGGATGCACTGCAGGGATGCATGGATGCACTACAG-GG
1 GTGCATGGATGCACTGCAGGG-TGCATCGATGCACTACAGCAG
2712044 GTGCATGGATGCACT
1 GTGCATGGATGCACT
2712059 TTGACACCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 34 0.69
43 15 0.31
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.22
Consensus pattern (42 bp):
GTGCATGGATGCACTGCAGGGTGCATCGATGCACTACAGCAG
Found at i:2712162 original size:29 final size:31
Alignment explanation
Indices: 2712130--2712190 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
2712120 AAACTTTGAA
*
2712130 TAAATTCGATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2712159 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2712190 T
1 T
2712191 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.34
30 11 0.38
31 8 0.28
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:2712850 original size:13 final size:13
Alignment explanation
Indices: 2712832--2712863 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2712822 CTTTATATGC
2712832 TAAAATTAAAAAT
1 TAAAATTAAAAAT
*
2712845 TAAAATTAAAATT
1 TAAAATTAAAAAT
2712858 TAAAAT
1 TAAAAT
2712864 ACCCGATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATTAAAAAT
Found at i:2712932 original size:17 final size:17
Alignment explanation
Indices: 2712910--2712945 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2712900 TTTCTATACC
2712910 AAGGTCAAAAATGTTAG
1 AAGGTCAAAAATGTTAG
2712927 AAGGTCAAAAATGTTAG
1 AAGGTCAAAAATGTTAG
2712944 AA
1 AA
2712946 AAAACATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (17 bp):
AAGGTCAAAAATGTTAG
Found at i:2713009 original size:18 final size:18
Alignment explanation
Indices: 2712968--2713003 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2712958 TGAAAAAAAG
*
2712968 AGAATAACAATAAATCAA
1 AGAAAAACAATAAATCAA
2712986 AGAAAAACAATAAATCAA
1 AGAAAAACAATAAATCAA
2713004 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (18 bp):
AGAAAAACAATAAATCAA
Found at i:2713022 original size:14 final size:13
Alignment explanation
Indices: 2713005--2713056 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
2712995 ATAAATCAAT
*
2713005 AAAAATAAAAGTAA
1 AAAAACAAAA-TAA
2713019 AAAAA-AAAA-AA
1 AAAAACAAAATAA
2713030 AAAAACAAAATAA
1 AAAAACAAAATAA
2713043 ATAAAACAAAATAA
1 A-AAAACAAAATAA
2713057 TAAATAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.20
12 4 0.11
13 7 0.20
14 17 0.49
ACGTcount: A:0.85, C:0.04, G:0.02, T:0.10
Consensus pattern (13 bp):
AAAAACAAAATAA
Found at i:2713093 original size:15 final size:15
Alignment explanation
Indices: 2713031--2713127 Score: 56
Period size: 16 Copynumber: 6.2 Consensus size: 15
2713021 AAAAAAAAAA
*
2713031 AAAACAAAATA-AAT
1 AAAAGAAAATATAAT
*
2713045 AAAACAAAATAATAAAT
1 AAAAGAAAAT-AT-AAT
*
2713062 AACCTAGAAAA-ATAAT
1 AA--AAGAAAATATAAT
**
2713078 ACCAGAAAATATAAT
1 AAAAGAAAATATAAT
2713093 AAAAGAAATATATAA-
1 AAAAGAAA-ATATAAT
*
2713108 AAAGAGTAAAATAAAAT
1 AAA-AG-AAAATATAAT
2713125 AAA
1 AAA
2713128 GGGACAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
14 16 0.24
15 15 0.23
16 17 0.26
17 13 0.20
19 5 0.08
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAGAAAATATAAT
Found at i:2713778 original size:3 final size:3
Alignment explanation
Indices: 2713755--2713813 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
2713745 GGCCTACAAA
*
2713755 AAT AAT AA- AAT AAAT ATT AAT AAT AAT AAT AAAT AAAT AAT ATAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT -AAT AAT A-AT AAT
2713803 -AT AAT AA- AAT A
1 AAT AAT AAT AAT A
2713814 TTTTTGTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
2 6 0.12
3 29 0.60
4 13 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2713786 original size:24 final size:25
Alignment explanation
Indices: 2713755--2713813 Score: 88
Period size: 23 Copynumber: 2.5 Consensus size: 25
2713745 GGCCTACAAA
*
2713755 AATAATAAAATAAATATTA-ATAAT
1 AATAATAAAATAAATAATATATAAT
2713779 AATAAT-AAATAAATAATATATAAT
1 AATAATAAAATAAATAATATATAAT
2713803 -ATAATAAAATA
1 AATAATAAAATA
2713814 TTTTTGTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAATAAAATAAATAATATATAAT
Found at i:2713795 original size:14 final size:16
Alignment explanation
Indices: 2713756--2713806 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 16
2713746 GCCTACAAAA
2713756 ATAATA-AAATAA-AT
1 ATAATATAAATAATAT
*
2713770 ATTA-AT-AATAATA-
1 ATAATATAAATAATAT
2713783 ATAA-ATAAATAATAT
1 ATAATATAAATAATAT
2713798 ATAATATAA
1 ATAATATAA
2713807 TAAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 11 0.37
14 11 0.37
15 4 0.13
16 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:2714296 original size:84 final size:83
Alignment explanation
Indices: 2714141--2714504 Score: 376
Period size: 84 Copynumber: 4.4 Consensus size: 83
2714131 TGATACGCCC
** * * * * * *
2714141 TCGAGCTGAATGGAATCGAACTCGAGGGTCTTTG--G-TAGATATCCCTTCTTGCCTTGAGTTAT
1 TCGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTGAGTTAT
2714203 GCTGCAAATGATAGTACCT
66 GCTGCAAATGAT-GTACCT
* * *
2714222 TCGAGTTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGAAAAATAACCCTTCTAGCCTTGAGTTAT
1 TCGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTGAGTTAT
** * *
2714287 GCTATAAATGATGTGCAT
66 GCTGCAAATGATGTACCT
* * * *
2714305 TGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTTGTT-AGCAAATAACCCTTCTTGCCTTGAGTT
1 TCGAGCTGAGCGGAGTCGAACTCGAAGGTC-TTTGTTGA-CAAATAACCCTTCTAGCCTTGAGTT
* * *
2714369 ATGTTGCAAATAATGTGCCT
64 ATGCTGCAAATGATGTACCT
* * * ** **
2714389 TGGAGCTGAGCGTAATCGAACTCGAAGGTCTTCATTGACAGGTAACCCTTCTAGCCTTGAGTTAT
1 TCGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTGAGTTAT
**
2714454 GCTGCAAATGACATACCT
66 GCTGCAAATGATGTACCT
* *
2714472 TAGAGCTGAGCGCAGTCGAACTCGAAGGTCTTT
1 TCGAGCTGAGCGGAGTCGAACTCGAAGGTCTTT
2714505 TGTGTTTCTG
Statistics
Matches: 237, Mismatches: 40, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
81 30 0.13
83 101 0.43
84 106 0.45
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (83 bp):
TCGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTGAGTTAT
GCTGCAAATGATGTACCT
Found at i:2714441 original size:167 final size:168
Alignment explanation
Indices: 2714183--2714507 Score: 445
Period size: 167 Copynumber: 1.9 Consensus size: 168
2714173 TGGTAGATAT
* * * *
2714183 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATAGTACCTTCGAGTTGAGTGGAGTCGAACTCGAA
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATAATAGTACCTTCGAGCTGAGCGGAATCGAACTCGAA
** * ** * *
2714248 GGTCTTTGTTGAAAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCATTGGAGCTG
66 GGTCTTCATTGAAAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACATACATTAGAGCTG
* *
2714313 AGCGTAGTTGAACTCGAAGGTCTTTTGTTAGCAAATAA
131 AGCGCAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAA
* * * *
2714351 CCCTTCTTGCCTTGAGTTATGTTGCAAATAAT-GTGCCTTGGAGCTGAGCGTAATCGAACTCGAA
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATAATAGTACCTTCGAGCTGAGCGGAATCGAACTCGAA
* ** * *
2714415 GGTCTTCATTGACAGGTAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACATACCTTAGAGCTG
66 GGTCTTCATTGAAAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACATACATTAGAGCTG
2714480 AGCGCAGTCGAACTCGAAGGTCTTTTGT
131 AGCGCAGTCGAACTCGAAGGTCTTTTGT
2714508 GTTTCTGGAG
Statistics
Matches: 135, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
167 105 0.78
168 30 0.22
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (168 bp):
CCCTTCTTGCCTTGAGTTATGCTGCAAATAATAGTACCTTCGAGCTGAGCGGAATCGAACTCGAA
GGTCTTCATTGAAAAATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACATACATTAGAGCTG
AGCGCAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAA
Found at i:2714575 original size:32 final size:33
Alignment explanation
Indices: 2714496--2714619 Score: 153
Period size: 33 Copynumber: 3.8 Consensus size: 33
2714486 GTCGAACTCG
* ** *
2714496 AAGGTCTTTTGTGTTTCTGGAGAAAC-ATTTCT
1 AAGGTTTTTTGTGTTTCAAGAGAAACAATTTCA
* * *
2714528 AAGTTTTTTTTGTGTTTCAATAGAAACGATTTCA
1 AAG-GTTTTTTGTGTTTCAAGAGAAACAATTTCA
*
2714562 AAGG-TTTTTGTGTTTTAAGAGAAACAATTTCA
1 AAGGTTTTTTGTGTTTCAAGAGAAACAATTTCA
2714594 AAGGTTTTTTGTGTTTCAAGAGAAAC
1 AAGGTTTTTTGTGTTTCAAGAGAAAC
2714620 TGTCTCCAAG
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
32 32 0.41
33 38 0.49
34 8 0.10
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (33 bp):
AAGGTTTTTTGTGTTTCAAGAGAAACAATTTCA
Found at i:2714602 original size:65 final size:66
Alignment explanation
Indices: 2714496--2714619 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 66
2714486 GTCGAACTCG
* * * *
2714496 AAGGTCTTTTGTGTTTCTGGAGAAACATTTCTAAGTTTTTTTTGTGTTTCAATAGAAACGATTTC
1 AAGGTCTTTTGTGTTTCTAGAGAAACATTTCAAAGTGTTTTTTGTGTTTCAAGAGAAACGATTTC
2714561 A
66 A
2714562 AAGGT-TTTTGTGTTT-TAAGAGAAACAATTTCAAAG-GTTTTTTGTGTTTCAAGAGAAAC
1 AAGGTCTTTTGTGTTTCT-AGAGAAAC-ATTTCAAAGTGTTTTTTGTGTTTCAAGAGAAAC
2714620 TGTCTCCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
64 1 0.02
65 38 0.73
66 13 0.25
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (66 bp):
AAGGTCTTTTGTGTTTCTAGAGAAACATTTCAAAGTGTTTTTTGTGTTTCAAGAGAAACGATTTC
A
Found at i:2714665 original size:70 final size:65
Alignment explanation
Indices: 2714572--2714720 Score: 183
Period size: 65 Copynumber: 2.2 Consensus size: 65
2714562 AAGGTTTTTG
* * *
2714572 TGTTTTAAGAGAAACAATTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCCAAGGAGGCAA
1 TGTTTCAAGAGAAACAATTTCAAA-G--ATTT-TGTTTCAAGAGAAACTGTCT-CAAGGAGACAA
*
2714637 AATTT
61 AACTT
*
2714642 TGTTTCAAGAGAAAC-ATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGGAGACAAAACT
1 TGTTTCAAGAGAAACAAT-TTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAACT
2714706 T
65 T
*
2714707 TGTTTCAAGGGAAA
1 TGTTTCAAGAGAAA
2714721 TTGTCTCAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
65 27 0.38
66 19 0.26
67 3 0.04
69 3 0.04
70 20 0.28
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACAATTTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAACTT
Found at i:2714716 original size:36 final size:35
Alignment explanation
Indices: 2714669--2714994 Score: 351
Period size: 36 Copynumber: 9.2 Consensus size: 35
2714659 ATTCAAAGAT
2714669 TTTGTTTCAAGGGAAACTGTCTCAAGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGGAGACAAAA
* *
2714704 CTTTGTTTCAAGGGAAATTGTCTCAAAAGAGACAAAA
1 -TTTGTTTCAAGGGAAACTGTCTC-AAGGAGACAAAA
**
2714741 TTTGTTTCAATAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAA
* * **
2714777 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAA-GGAGACAAAA
** * *
2714814 TTTGTTTCAAGAAAAACATAT-TCAA--AG----AT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGGAGACAAAA
2714843 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAA-GGAGACAAAA
*
2714879 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAA
* *
2714915 TTTGTTTCAAGGGAAACTATCTCAAGAGAAACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAA
* *
2714951 TTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAA
2714987 CTTTGTTT
1 -TTTGTTT
2714995 TGAGTAAATT
Statistics
Matches: 249, Mismatches: 26, Indels: 29
0.82 0.09 0.10
Matches are distributed among these distances:
28 2 0.01
29 20 0.08
32 2 0.01
33 2 0.01
35 3 0.01
36 169 0.68
37 50 0.20
38 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (35 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGGAGACAAAA
Found at i:2714776 original size:138 final size:139
Alignment explanation
Indices: 2714605--2714994 Score: 390
Period size: 138 Copynumber: 2.8 Consensus size: 139
2714595 AGGTTTTTTG
*
2714605 TGTTTCAAGAGAAACTGTCTCCAAG-GAGGCAAAATTTTGTTTCAAGAGAAACATAT-TCAA-AG
1 TGTTTCAAGAGAAACTGTCT-CAAGAGAGACAAAA-TTTGTTTCAAGAGAAAC-TATCTCAAGAG
* * *
2714667 -ATTTTGTTTCAAGGGAAACTGTCTCAAGGAGACAAAACTTTGTTTCAAGGGAAATTGTCTCAAA
63 AAATTTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAA
2714731 AGAGACAAAATT
128 AGAGACAAAATT
* * * * *
2714743 TGTTTCAATAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTATCTCAA--GAG
* * *
2714808 ACAAAATTTGTTTCAAGAAAAACATAT-TCAA--AG-----ATTTTGTTTCAAGGGAAACTGTCT
63 ---AAATTTGTTTCAAGAGAAAC-TGTCTCAAGGAGACAAAACTTTGTTTCAAGGGAAACTGTCT
**
2714865 CAAGGGAGACAAAATT
124 CAAAAGAGACAAAATT
* * *
2714881 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAG---
*
2714946 CAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
63 --AAATTTGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAACTTTGTTT
2714995 TGAGTAAATT
Statistics
Matches: 204, Mismatches: 27, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
135 3 0.01
136 2 0.01
137 51 0.25
138 112 0.55
140 2 0.01
141 2 0.01
143 2 0.01
145 28 0.14
146 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (139 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAAA
TTTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAAAGA
GACAAAATT
Found at i:2714834 original size:174 final size:174
Alignment explanation
Indices: 2714614--2714994 Score: 588
Period size: 174 Copynumber: 2.2 Consensus size: 174
2714604 GTGTTTCAAG
* * *
2714614 AGAAACTGTCTCCAA-GGAGGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTTTGTTTCA
1 AGAAACTGTCT-CAAGGGAGACAAAACTTTGTTTCAAGAAAAACATATTCAAAGATTTTGTTTCA
* *
2714678 AGGGAAACTGTCTCAA-GGAGACAAAACTTTGTTTCAAGGGAAATTGTCTCAAAAGAGACAAAAT
65 AGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAAAGAGACAAAAT
* * *
2714742 TTGTTTCAATAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
129 TTGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTA-TTCCAAA
2714789 AGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGAAAAACATATTCAAAGATTTTGTTTCAA
1 AGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGAAAAACATATTCAAAGATTTTGTTTCAA
*
2714853 GGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
66 GGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAAAGAGACAAAATTT
* * * *
2714918 GTTTCAAGGGAAACTATCTCAAGAGAAACAAAATTTATTTCAAG
131 GTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTATTCCAAA
*
2714962 AGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 AGAAACTGTCTCAAGGGAGACAAAACTTTGTTT
2714995 TGAGTAAATT
Statistics
Matches: 190, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
173 29 0.15
174 131 0.69
175 30 0.16
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (174 bp):
AGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGAAAAACATATTCAAAGATTTTGTTTCAA
GGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAAAGAGACAAAATTT
GTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTATTCCAAA
Found at i:2714925 original size:101 final size:102
Alignment explanation
Indices: 2714741--2714989 Score: 295
Period size: 101 Copynumber: 2.4 Consensus size: 102
2714731 AGAGACAAAA
* * *
2714741 TTTGTTTCAATAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAG
2714806 AGACAAAATTTGTTTCAAGAAAAACATATTCAAAGAT
66 AGACAAAATTTGTTTCAAGAAAAACATATTCAAAGAT
* * * * **
2714843 TTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAG
** *
2714907 AGACAAAATTTGTTTCAAGGGAAAC-TATCTCAAGAGAAACAAAA
66 AGACAAAATTTGTTTCAAGAAAAACATAT-TCAA-AG------AT
*
2714951 TTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
2714990 TGTTTTGAGT
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
100 3 0.02
101 49 0.40
102 35 0.28
108 34 0.28
109 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAG
AGACAAAATTTGTTTCAAGAAAAACATATTCAAAGAT
Found at i:2715502 original size:65 final size:64
Alignment explanation
Indices: 2715348--2715578 Score: 327
Period size: 64 Copynumber: 3.6 Consensus size: 64
2715338 TGTCGCTTCC
* * * *
2715348 AGTCCAATATCCTTCGTTGCGAAGTTGAAAATGACTCTGAATGAAATTGGAAAGTTGTTTGCTG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
** * **
2715412 AGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAAACTGTTTGTTG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTG-GAAAGTTGTTTGTTG
*
2715477 AGTCCAATATCCTTCGTTGTTAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* ** *
2715541 AGTCCAATATCATTCGTCATGAAGTTGAAATTAACTCT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT
2715579 AAAAGCTGCA
Statistics
Matches: 146, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
64 89 0.61
65 57 0.39
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (64 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
Found at i:2716542 original size:96 final size:96
Alignment explanation
Indices: 2716377--2716567 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 96
2716367 ACAACTCAAT
* * ** * *
2716377 ATATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCC
1 ATATAAACACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGGCATTTAACCAAATACC
*
2716442 TTAGAGAGA-AAGTTCAAGCTTTATTGTATAG
66 TTAGAGAGACAA-CTCAAGCTTTATTGTATAG
* * *
2716473 ATATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCTGGGGCATTTAACCAAATACT
1 ATATAAACACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGGCATTTAACCAAATACC
*
2716538 TTAGAGGGACAACTCAAGCTTTATTGTATA
66 TTAGAGAGACAACTCAAGCTTTATTGTATA
2716568 TATAATAGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
96 81 0.98
97 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (96 bp):
ATATAAACACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGGGGCATTTAACCAAATACC
TTAGAGAGACAACTCAAGCTTTATTGTATAG
Found at i:2720245 original size:13 final size:13
Alignment explanation
Indices: 2720227--2720257 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2720217 TTTATAAGCG
2720227 AAAATTAAAAATT
1 AAAATTAAAAATT
*
2720240 AAAATTAAAATTT
1 AAAATTAAAAATT
2720253 AAAAT
1 AAAAT
2720258 ACTCGATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:2720374 original size:18 final size:18
Alignment explanation
Indices: 2720351--2720386 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2720341 AAATGATAAT
2720351 AACAATAAATCAATAAAA
1 AACAATAAATCAATAAAA
2720369 AACAATAAATCAATAAAA
1 AACAATAAATCAATAAAA
2720387 TCAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (18 bp):
AACAATAAATCAATAAAA
Found at i:2720413 original size:19 final size:18
Alignment explanation
Indices: 2720391--2720426 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2720381 ATAAAATCAA
*
2720391 TAAAAATTAAAAGTAAAAG
1 TAAAAA-TAAAAATAAAAG
2720410 TAAAAATAAAAATAAAA
1 TAAAAATAAAAATAAAA
2720427 TAAGTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
TAAAAATAAAAATAAAAG
Found at i:2720480 original size:15 final size:15
Alignment explanation
Indices: 2720454--2720514 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
2720444 TAAAAAACCT
**
2720454 AGAAAA-ATAATACC
1 AGAAAATATAATAAA
2720468 AGAAAATATAATAAA
1 AGAAAATATAATAAA
2720483 AGAAATATATAA-AAA
1 AGAAA-ATATAATAAA
*
2720498 GAGTAAAATAAAATAAA
1 -AG-AAAATATAATAAA
2720515 TGGACAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.15
15 14 0.36
16 13 0.33
17 6 0.15
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.18
Consensus pattern (15 bp):
AGAAAATATAATAAA
Found at i:2721150 original size:8 final size:8
Alignment explanation
Indices: 2721137--2721207 Score: 67
Period size: 8 Copynumber: 8.6 Consensus size: 8
2721127 GGGGCCTGTA
2721137 AAAATAAT
1 AAAATAAT
2721145 AAAATAAT
1 AAAATAAT
2721153 AAAATAAT
1 AAAATAAT
2721161 AATAATAAT
1 AA-AATAAT
2721170 AATAA-AAT
1 AA-AATAAT
2721178 -AAATAAAT
1 AAAAT-AAT
2721186 ATATAAT-AT
1 A-A-AATAAT
*
2721195 AATATAAT
1 AAAATAAT
2721203 AAAAT
1 AAAAT
2721208 GTTTTTGTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 31 0.57
9 14 0.26
10 1 0.02
11 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATAAT
Found at i:2721153 original size:3 final size:3
Alignment explanation
Indices: 2721139--2721204 Score: 70
Period size: 3 Copynumber: 22.7 Consensus size: 3
2721129 GGCCTGTAAA
2721139 AAT AAT AA- AAT AAT AA- AAT AAT AAT AAT AAT AAT AA- AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
2721182 AAAT ATAT AAT -AT AAT -AT AAT AA
1 -AAT A-AT AAT AAT AAT AAT AAT AA
2721205 AATGTTTTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.18
3 36 0.64
4 10 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2721171 original size:25 final size:27
Alignment explanation
Indices: 2721139--2721207 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
2721129 GGCCTGTAAA
2721139 AATAATAAAATAATAAAAT-AATA-AT
1 AATAATAAAATAATAAAATAAATATAT
2721164 AATAATAATAA-AAT-AAATAAATATAT
1 AATAATAA-AATAATAAAATAAATATAT
*
2721190 AAT-ATAATATAATAAAAT
1 AATAATAAAATAATAAAAT
2721208 GTTTTTGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
24 5 0.13
25 22 0.58
26 11 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AATAATAAAATAATAAAATAAATATAT
Found at i:2728818 original size:40 final size:40
Alignment explanation
Indices: 2728742--2728819 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
2728732 TATTAAGTTC
* * **
2728742 TTCGACTATTAAAAATTATAAAATGGTCCTTTGACTATCT
1 TTCGACTATTAAAAATTACAAAATGATCCTCCGACTATCT
*
2728782 TTCGACTATTAAAAGTTACAAAATGATCAC-CCGACTAT
1 TTCGACTATTAAAAATTACAAAATGATC-CTCCGACTAT
2728820 TCATTATGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (40 bp):
TTCGACTATTAAAAATTACAAAATGATCCTCCGACTATCT
Found at i:2734361 original size:25 final size:24
Alignment explanation
Indices: 2734333--2734387 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
2734323 TATATATCAT
2734333 AATAATA-TATGATATTATATTTTTA
1 AATAATACTAT-ATA-TATATTTTTA
* *
2734358 AATAATACTATTTATCTATTTTTA
1 AATAATACTATATATATATTTTTA
2734382 AATAAT
1 AATAAT
2734388 TTAAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 15 0.56
25 9 0.33
26 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
AATAATACTATATATATATTTTTA
Found at i:2736557 original size:133 final size:133
Alignment explanation
Indices: 2736401--2736642 Score: 414
Period size: 133 Copynumber: 1.8 Consensus size: 133
2736391 TTTTTCCTAA
* *
2736401 TAATATTTATACTAAGTCCATATAATTTACTTTATACAAACCAGTCTAAACTACGATAATTAAAC
1 TAATATTTATACTAAGCCCATATAATTTACTTTATAAAAACCAGTCTAAACTACGATAATTAAAC
*
2736466 GATAAAACCAAAACACATAATATACAT-GTCACTATTAAGTCAAACTACGATAATTACTTTATAC
66 GATAAAACCAAAACACATAATATACATACT-ACTATTAAGTCAAACTACGATAATTACTTTATAC
2736530 AAAG
130 AAAG
*
2736534 TAATATTTATACTAAGCCCATATAATTTACTTTATAAAAACCAGTCTTAACTACGATAATTAAAC
1 TAATATTTATACTAAGCCCATATAATTTACTTTATAAAAACCAGTCTAAACTACGATAATTAAAC
* *
2736599 GGTAAAACCAAAACACATAATATACATACTATTATTAAGTCAAA
66 GATAAAACCAAAACACATAATATACATACTACTATTAAGTCAAA
2736643 AGAGACATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
133 101 0.99
134 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (133 bp):
TAATATTTATACTAAGCCCATATAATTTACTTTATAAAAACCAGTCTAAACTACGATAATTAAAC
GATAAAACCAAAACACATAATATACATACTACTATTAAGTCAAACTACGATAATTACTTTATACA
AAG
Found at i:2746370 original size:18 final size:18
Alignment explanation
Indices: 2746347--2746381 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2746337 CTTAAAATCA
2746347 AAAGATAAAAGAGTTAGG
1 AAAGATAAAAGAGTTAGG
* *
2746365 AAAGATTAAAGATTTAG
1 AAAGATAAAAGAGTTAG
2746382 AGTTCTTGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
AAAGATAAAAGAGTTAGG
Found at i:2748013 original size:21 final size:21
Alignment explanation
Indices: 2747987--2748031 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2747977 TTACGAAAGT
*
2747987 CACTGTAGCAGTGTATCGATG
1 CACTGTAGCAGTGCATCGATG
*
2748008 CACTGTAGTAGTGCATCGATG
1 CACTGTAGCAGTGCATCGATG
2748029 CAC
1 CAC
2748032 AATATTGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (21 bp):
CACTGTAGCAGTGCATCGATG
Found at i:2755521 original size:46 final size:46
Alignment explanation
Indices: 2755470--2755770 Score: 394
Period size: 46 Copynumber: 6.6 Consensus size: 46
2755460 ACCATAATGT
** * * * *
2755470 ATTTTCATTGGTGGCATCCTTTTATGCCAATTATGCACCGTTAAGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* *
2755516 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGTACCATTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
2755562 ATTTTCATTCATGGCATCATTTCAAG-CTGATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCT-ATAATGCACCGTTATGC
*
2755608 ATTTTCATTTATGGTATCCTTTCATGCCTATAATGCACCGTTATG-
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
2755653 -TTTTCATTTATTGCATCATTTCATGCCTATAATGCACCATT-TGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
2755697 ATTTTCATTTATGGTATCCTTTCATGCCGATAATGAACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
*
2755743 ATTTTCATTTATTGCATCCTTTCATGCC
1 ATTTTCATTTATGGCATCCTTTCATGCC
2755771 AAAGGCATTT
Statistics
Matches: 221, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
43 2 0.01
44 37 0.17
45 37 0.17
46 143 0.65
47 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.43
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
Found at i:2755862 original size:81 final size:81
Alignment explanation
Indices: 2755770--2756658 Score: 1278
Period size: 81 Copynumber: 11.0 Consensus size: 81
2755760 CCTTTCATGC
* * * * * * ** *
2755770 CAAAGGCATTTAACCTTTCATCTAACTTGCATTATTGTCACATTTCT-ACAAAATGCACAGTTAA
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTC-AAATGCACAACTAG
*
2755834 GCAATTATTCTTTTACT
65 GCAATTAATCTTTTACT
* * *
2755851 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTGTCAAATGCACAGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
2755916 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * * *
2755932 CAAAGATATTTAACCTTTTATCTAACTAGCATGATTGACACCTTTATGTCAAATGCACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
2755997 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * *
2756013 CAAAGGTATTTAACCTTTCATCTAACTGGAATGATTGACACCTTTATGTCAAATGCACATCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
2756078 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * *
2756094 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTATCAAATGCACAACTAGA
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
* *
2756159 CAATTAATTTTTTTCT
66 CAATTAATCTTTTACT
* *
2756175 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCATAGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
*
2756240 AAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * * * *
2756256 CAAAGGTATTTAACCGTTCATCTAATTGGCATGATTGACATCTTTCTGTCAAAGGAACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
*
2756321 CAATTAATCTTTTCCT
66 CAATTAATCTTTTACT
* ** *
2756337 CAAAGGTATCTAACCTTTCATCTAACCAGCATGATTGACACCTTTCTGTCAAATGCACAACAAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
* * *
2756402 CCATTAGTATTTTACT
66 CAATTAATCTTTTACT
* * * *
2756418 CAAAGGTATTTATCCTTTCATCTAACTGGAATGATTGACACCTTTCTGTTAAATGCACAGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
2756483 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * *
2756499 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAGTTCACATCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
*
2756564 CAATTAATATTTTACT
66 CAATTAATCTTTTACT
* * *
2756580 CGAAGGTATTTAACCTTTCATCTAACAT-GCATAATTGGCACCTTTCTGTCAAATGCACAACTAG
1 CAAAGGTATTTAACCTTTCATCTAAC-TGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
2756644 GCAATTAATCTTTTA
65 GCAATTAATCTTTTA
2756659 TTTTAAAACA
Statistics
Matches: 721, Mismatches: 85, Indels: 4
0.89 0.10 0.00
Matches are distributed among these distances:
81 719 1.00
82 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGG
CAATTAATCTTTTACT
Found at i:2759243 original size:21 final size:21
Alignment explanation
Indices: 2759218--2759276 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
2759208 AGGATTCGAG
2759218 TATCGATACTAGGATGAACAA
1 TATCGATACTAGGATGAACAA
*
2759239 TATCGATACTAGGATAAACAA
1 TATCGATACTAGGATGAACAA
2759260 TATCGATACT-GGATGAA
1 TATCGATACTAGGATGAA
2759277 TTGGGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (21 bp):
TATCGATACTAGGATGAACAA
Found at i:2759332 original size:20 final size:20
Alignment explanation
Indices: 2759307--2759358 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2759297 TCAAGCAGGG
2759307 AGTATCGATA-TTGCTATGAT
1 AGTATCGATACTT-CTATGAT
*
2759327 AGTATCGATACTTTTATGAT
1 AGTATCGATACTTCTATGAT
2759347 AGTATCGATACT
1 AGTATCGATACT
2759359 GCCCCTTCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
AGTATCGATACTTCTATGAT
Found at i:2772667 original size:21 final size:19
Alignment explanation
Indices: 2772643--2772681 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
2772633 ACTAAAATAT
2772643 AAATGAATGTAAATTGTTATG
1 AAATG-ATGT-AATTGTTATG
*
2772664 AAATGATGTTATTGTTAT
1 AAATGATGTAATTGTTAT
2772682 AAGGATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (19 bp):
AAATGATGTAATTGTTATG
Found at i:2778734 original size:23 final size:23
Alignment explanation
Indices: 2778698--2778774 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
2778688 AAAAAAAATT
* *
2778698 GAAAAATGTGCCACAAAGGTAGA
1 GAAAAACGTTCCACAAAGGTAGA
* *
2778721 GAAAAACGTTCCACAAAAGTATA
1 GAAAAACGTTCCACAAAGGTAGA
* * *
2778744 GATAAACGTGT-CATAAAGGCAGA
1 GAAAAACGT-TCCACAAAGGTAGA
2778767 GATAAAAC
1 GA-AAAAC
2778775 ATGCAACACA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
23 37 0.88
24 5 0.12
ACGTcount: A:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (23 bp):
GAAAAACGTTCCACAAAGGTAGA
Found at i:2779030 original size:23 final size:23
Alignment explanation
Indices: 2778994--2779038 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2778984 CAAAAGAGAG
* *
2778994 ATAAACGTGTAACACATGCAGAC
1 ATAAACGCGCAACACATGCAGAC
2779017 ATAAACGCGCAACACATGCAGA
1 ATAAACGCGCAACACATGCAGA
2779039 ATTATTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.13
Consensus pattern (23 bp):
ATAAACGCGCAACACATGCAGAC
Found at i:2779136 original size:221 final size:224
Alignment explanation
Indices: 2778764--2779193 Score: 523
Period size: 221 Copynumber: 1.9 Consensus size: 224
2778754 TCATAAAGGC
* * *
2778764 AGAGATAAAACATGCAACACAAACAGAGATAAACACGCAACATATGCAGAATTATTTTTATTAAA
1 AGAGATAAAACATGCAACACAAACAGACATAAACACGCAACACATGCAGAATTATTCTTATTAAA
* * * *
2778829 AAAATAAAAGAAAAAAACAAAGAGAAAAGAGAATTGACAGTCAGCAACCAGCGTCAAAGCCGATG
66 AAAACAAAAG-AAAAAACAAAGAGAAAAGAGAATTGACAGTCAGCAACCAACGTAAAAGCAGATG
* * *
2778894 CTGCCACCGGCTAAAGAAAATCGAAGAAGAAAAAGTTT-ATTTGATCTATAAAAACGATACAAAC
130 CTGCCACCGGCTAAAGAAAATCAAAGAAGAAAAA-TTTAATTTGATATATAAAAACAATACAAAC
* *
2778958 TTAGAGAAAAAGAAAAAAAAGGAAGACAAAAG
194 TCAAAGAAAAA-AAAAAAAAGGAAGACAAAAG
* * ** * *
2778990 AGAGAT-AAACGTGTAACACATGCAGACATAAACGCGCAACACATGCAGAATTATTCTTATT-AG
1 AGAGATAAAACATGCAACACAAACAGACATAAACACGCAACACATGCAGAATTATTCTTATTAAA
* * * * * *
2779053 AAAACAAAAG-TAAAAGAGAGAGAAAAGAGAATTGACAGT-TGACAACCAACATTAAAATCAG-T
66 AAAACAAAAGAAAAAACAAAGAGAAAAGAGAATTGACAGTCAG-CAACCAAC-GTAAAAGCAGAT
* **
2779115 GTTG-CAGTGGCTAAAGAAAATCAAAGAAGAAAAATTTAATTTGATATATAAAAACAATACAAAC
129 GCTGCCACCGGCTAAAGAAAATCAAAGAAGAAAAATTTAATTTGATATATAAAAACAATACAAAC
2779179 TCAAAGAAAAAAAAA
194 TCAAAGAAAAAAAAA
2779194 GGAAGACAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
220 7 0.04
221 61 0.35
222 37 0.21
223 6 0.03
224 10 0.06
225 47 0.27
226 6 0.03
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.17
Consensus pattern (224 bp):
AGAGATAAAACATGCAACACAAACAGACATAAACACGCAACACATGCAGAATTATTCTTATTAAA
AAAACAAAAGAAAAAACAAAGAGAAAAGAGAATTGACAGTCAGCAACCAACGTAAAAGCAGATGC
TGCCACCGGCTAAAGAAAATCAAAGAAGAAAAATTTAATTTGATATATAAAAACAATACAAACTC
AAAGAAAAAAAAAAAAAGGAAGACAAAAG
Found at i:2779542 original size:25 final size:25
Alignment explanation
Indices: 2779498--2779558 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
2779488 AATTACTAAA
*
2779498 TTTTACATT-TTATAAGTTTTATAT
1 TTTTATATTATTATAAGTTTTATAT
2779522 TTTTATATTATTATGAA-TTTTATAT
1 TTTTATATTATTAT-AAGTTTTATAT
*
2779547 TTTTGTATTATT
1 TTTTATATTATT
2779559 TTTATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 8 0.24
25 23 0.70
26 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (25 bp):
TTTTATATTATTATAAGTTTTATAT
Found at i:2786180 original size:22 final size:22
Alignment explanation
Indices: 2786142--2786183 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2786132 TTGTACTAAT
*
2786142 TCATTTTTTCTTATTTTTTGGG
1 TCATTTTTTCGTATTTTTTGGG
2786164 TCATTCTTTTCGT-TTTTTTG
1 TCATT-TTTTCGTATTTTTTG
2786184 CATTGCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.07, C:0.12, G:0.12, T:0.69
Consensus pattern (22 bp):
TCATTTTTTCGTATTTTTTGGG
Found at i:2790024 original size:10 final size:10
Alignment explanation
Indices: 2790009--2790096 Score: 88
Period size: 10 Copynumber: 8.2 Consensus size: 10
2789999 AACGAGAGGC
*
2790009 AAAAAATGAA
1 AAAAAAAGAA
*
2790019 AAAAAAAGATG
1 AAAAAAAGA-A
2790030 AAAAAAAGAA
1 AAAAAAAGAA
2790040 AAAAAAAGAA
1 AAAAAAAGAA
2790050 AAAAAGAA-AA
1 AAAAA-AAGAA
2790060 AAGAAAAAGAAA
1 AA-AAAAAG-AA
2790072 AAGAAAAAGAAA
1 AA-AAAAAG-AA
2790084 AAGAAAAAGAA
1 AA-AAAAAGAA
2790095 AA
1 AA
2790097 TGAATAAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
10 29 0.41
11 18 0.26
12 23 0.33
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:2790034 original size:1 final size:1
Alignment explanation
Indices: 2790030--2790096 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
2790020 AAAAAAGATG
* * * * * * * * *
2790030 AAAAAAAGAAAAAAAAAGAAAAAAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2790095 AA
1 AA
2790097 TGAATAAATG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:2790043 original size:18 final size:18
Alignment explanation
Indices: 2790020--2790096 Score: 93
Period size: 18 Copynumber: 4.2 Consensus size: 18
2790010 AAAAATGAAA
*
2790020 AAAAAAGATGAAAAAAAG
1 AAAAAAGAAGAAAAAAAG
*
2790038 AAAAAAAAAGAAAAAAAG
1 AAAAAAGAAGAAAAAAAG
*
2790056 AAAAAAGAAAAAGAAAAAG
1 AAAAAAGAAGAA-AAAAAG
*
2790075 -AAAAAGAAAAAGAAAAAG
1 AAAAAAGAAGAA-AAAAAG
2790093 AAAA
1 AAAA
2790097 TGAATAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
18 44 0.83
19 9 0.17
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (18 bp):
AAAAAAGAAGAAAAAAAG
Found at i:2790051 original size:6 final size:6
Alignment explanation
Indices: 2790032--2790096 Score: 96
Period size: 6 Copynumber: 10.7 Consensus size: 6
2790022 AAAAGATGAA
*
2790032 AAAAAG AAAAA- AAAAGAA AAAAAG AAAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAA-AG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG
2790081 AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAA
2790097 TGAATAAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
5 4 0.07
6 41 0.75
7 10 0.18
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2790053 original size:12 final size:12
Alignment explanation
Indices: 2790009--2790096 Score: 95
Period size: 13 Copynumber: 7.0 Consensus size: 12
2789999 AACGAGAGGC
*
2790009 AAAAAATGAAAA
1 AAAAAAAGAAAA
*
2790021 AAAAAGATGAAAA
1 AAAAA-AAGAAAA
*
2790034 AAAGAAAAAAAAA
1 AAA-AAAAGAAAA
2790047 GAAAAAAAGAAAA
1 -AAAAAAAGAAAA
2790060 AAGAAAAAGAAAA
1 AA-AAAAAGAAAA
*
2790073 AGAAAAAGAAAA
1 AAAAAAAGAAAA
*
2790085 AGAAAAAGAAAA
1 AAAAAAAGAAAA
2790097 TGAATAAATG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
12 29 0.43
13 34 0.50
14 5 0.07
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:2790669 original size:25 final size:25
Alignment explanation
Indices: 2790624--2790695 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
2790614 AGTAAGGGGC
*
2790624 AATATTTTTCAAAATT-CTTCATCA
1 AATATTTTTCAAAATTATTTCATCA
**
2790648 AATATTTTTTGAAATTATTTCATCA
1 AATATTTTTCAAAATTATTTCATCA
*
2790673 AACATTTTTCAAAATTATTTCAT
1 AATATTTTTCAAAATTATTTCAT
2790696 TATTCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (25 bp):
AATATTTTTCAAAATTATTTCATCA
Found at i:2791679 original size:90 final size:90
Alignment explanation
Indices: 2791529--2791703 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 90
2791519 CCGAAAGTGG
* * * * *
2791529 CCATATCTCTTCAATGTGGATGAACAGTGTCATCTTCAACACCATATTATCTTCATATTGATCCG
1 CCATATCTCTTCAATATGGATGAACAGTGTCATCTTCAACACCAAATTATCTTCAGATTGACCCA
* *
2791594 ACTTCCTCAATGAGAAGGAAAGCGA
66 AATTCCTCAATGAAAAGGAAAGCGA
* *
2791619 CCATATCTCTTCAATATGGATGAGCAGTGTCATCTTCAGCACCAAATTATC-TCTAGATTGACCC
1 CCATATCTCTTCAATATGGATGAACAGTGTCATCTTCAACACCAAATTATCTTC-AGATTGACCC
2791683 AAATTCCTCAATGAAAAGGAA
65 AAATTCCTCAATGAAAAGGAA
2791704 CAGTGTCATC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
89 2 0.03
90 73 0.97
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (90 bp):
CCATATCTCTTCAATATGGATGAACAGTGTCATCTTCAACACCAAATTATCTTCAGATTGACCCA
AATTCCTCAATGAAAAGGAAAGCGA
Found at i:2791772 original size:212 final size:212
Alignment explanation
Indices: 2791402--2791792 Score: 525
Period size: 212 Copynumber: 1.8 Consensus size: 212
2791392 AATGAGAAAG
* * * * *
2791402 AGCGACCAAATCTCTTTAATGTGGATGAGTAGTGTCTTTTTCAACACCAAATTATCTCTAGATTG
1 AGCGACCAAATCTCTTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCTAGATTG
* ** * * * * * *
2791467 ATCTGATTTCCTCAACGAGAAGGAAAATCGTCATCTTCAATAAACAATTTACCCGAAAGTGGCCA
66 ACCCAAATTCCTCAACGAAAAGGAAAATCGTCATCTTCAACAAACAAATTACCCGAAAGCGACCA
* * *
2791532 TATCTCTTCAATGTGGATGAACAGTGTCATCTTCAACACCATATTATCTTCATATTGATCCGACT
131 TATATCTTCAATGTAGATGAACAGTGTCATCTTCAACACCAAATTATCTTCATATTGATCCGACT
2791597 TCCTCAATGAGAAGGAA
196 TCCTCAATGAGAAGGAA
* *
2791614 AGCGACCATATCTCTTCAATATGGATGAGCAGTGTCATCTTCAGCACCAAATTATCTCTAGATTG
1 AGCGACCAAATCTCTTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCTAGATTG
* * * *
2791679 ACCCAAATTCCTCAATGAAAAGGAACAGT-GTCATCTTCAGCAAGA-AAATTACCTGAAAGCGAC
66 ACCCAAATTCCTCAACGAAAAGGAA-AATCGTCATCTTCAACAA-ACAAATTACCCGAAAGCGAC
**
2791742 CATATATCTTCAATGTAGATGATTAGTGTCATCTTCAACACCAAATTATCT
129 CATATATCTTCAATGTAGATGAACAGTGTCATCTTCAACACCAAATTATCT
2791793 CAAGATCGAC
Statistics
Matches: 152, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
212 149 0.98
213 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (212 bp):
AGCGACCAAATCTCTTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCTAGATTG
ACCCAAATTCCTCAACGAAAAGGAAAATCGTCATCTTCAACAAACAAATTACCCGAAAGCGACCA
TATATCTTCAATGTAGATGAACAGTGTCATCTTCAACACCAAATTATCTTCATATTGATCCGACT
TCCTCAATGAGAAGGAA
Found at i:2791803 original size:61 final size:60
Alignment explanation
Indices: 2791616--2791803 Score: 171
Period size: 61 Copynumber: 3.1 Consensus size: 60
2791606 AGAAGGAAAG
* * * *
2791616 CGACCATATCTCTTCAATATGGATGAGCAGTGTCATCTTCAGCACCAAATTATCTCTAGAT
1 CGACCATAT-TCTTCAATGTAGATGAACAGTGTCATCTTCAGCACCAAATTATCTCAAGAT
* * * * * * ** * * *
2791677 TGACCCAAATTCCTCAATGAAAAGGAACAGTGTCATCTTCAGCAAGAAAATTACCTGAA-AG
1 CGA-CCATATTCTTCAATGTAGATGAACAGTGTCATCTTCAGC-ACCAAATTATCTCAAGAT
** *
2791738 CGACCATATATCTTCAATGTAGATGATTAGTGTCATCTTCAACACCAAATTATCTCAAGAT
1 CGACCATAT-TCTTCAATGTAGATGAACAGTGTCATCTTCAGCACCAAATTATCTCAAGAT
2791799 CGACC
1 CGACC
2791804 CAAATTCCTT
Statistics
Matches: 94, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
60 16 0.17
61 63 0.67
62 15 0.16
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (60 bp):
CGACCATATTCTTCAATGTAGATGAACAGTGTCATCTTCAGCACCAAATTATCTCAAGAT
Found at i:2791839 original size:61 final size:61
Alignment explanation
Indices: 2791644--2791831 Score: 186
Period size: 61 Copynumber: 3.1 Consensus size: 61
2791634 ATGGATGAGC
* * * * *
2791644 AGTGTCATCTTCAGCACCAAATTATCTCTAGATTGACCCAAATTCCTCAATGAAAAGGAAC
1 AGTGTCATCTTCAGCACCAAATTATCTCAAGATCGACCCAAATTCCTTAATGAGAAGGAAT
** * * * * * *
2791705 AGTGTCATCTTCAGCAAGAAAATTACCTGAA-AGCGA-CCATATAT-CTTCAATGTAG-ATGATT
1 AGTGTCATCTTCAGC-ACCAAATTATCTCAAGATCGACCCAAAT-TCCTT-AATG-AGAAGGAAT
*
2791766 AGTGTCATCTTCAACACCAAATTATCTCAAGATCGACCCAAATTCCTTAATGAGAAGGAAT
1 AGTGTCATCTTCAGCACCAAATTATCTCAAGATCGACCCAAATTCCTTAATGAGAAGGAAT
2791827 AGTGT
1 AGTGT
2791832 TGTCTTCATA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
60 20 0.21
61 58 0.60
62 19 0.20
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (61 bp):
AGTGTCATCTTCAGCACCAAATTATCTCAAGATCGACCCAAATTCCTTAATGAGAAGGAAT
Found at i:2791839 original size:122 final size:122
Alignment explanation
Indices: 2791611--2791831 Score: 343
Period size: 122 Copynumber: 1.8 Consensus size: 122
2791601 CAATGAGAAG
* * * *
2791611 GAAAGCGACCATATCTCTTCAATATGGATGAGCAGTGTCATCTTCAGCACCAAATTATCTCTAGA
1 GAAAGCGACCATATATCTTCAATATAGATGAGCAGTGTCATCTTCAACACCAAATTATCTCAAGA
*
2791676 TTGACCCAAATTCCTCAATGAAAAGGAACAGTGTCATCTTCAGCAAGAAAATTACCT
66 TCGACCCAAATTCCTCAATGAAAAGGAACAGTGTCATCTTCAGCAAGAAAATTACCT
* **
2791733 GAAAGCGACCATATATCTTCAATGTAGATGATTAGTGTCATCTTCAACACCAAATTATCTCAAGA
1 GAAAGCGACCATATATCTTCAATATAGATGAGCAGTGTCATCTTCAACACCAAATTATCTCAAGA
* * *
2791798 TCGACCCAAATTCCTTAATGAGAAGGAATAGTGT
66 TCGACCCAAATTCCTCAATGAAAAGGAACAGTGT
2791832 TGTCTTCATA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
122 88 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (122 bp):
GAAAGCGACCATATATCTTCAATATAGATGAGCAGTGTCATCTTCAACACCAAATTATCTCAAGA
TCGACCCAAATTCCTCAATGAAAAGGAACAGTGTCATCTTCAGCAAGAAAATTACCT
Found at i:2792103 original size:125 final size:124
Alignment explanation
Indices: 2791854--2792175 Score: 339
Period size: 125 Copynumber: 2.6 Consensus size: 124
2791844 CACAGCTACC
* * * *
2791854 AATTACGACTTAGCATCTTTTAGAGGAAGGCA-TAAGATCGTCCCACG--GC-GTGTCTTTTAGA
1 AATTACGACTAAGCATC-CTTAGAGGAAAG-AGTAAGATCGTCCCACGACTCAGTGTCTTTTAGA
* * * * * * *
2791915 TGAAATAGTGAGATCGTAAGCATATTCAACATCCTTCAGTAAAAGGAGTGGATCGACCCCG
64 GGAAATAGTGAAATCGTAACCAGATTCAACATCCTTCAGTAAAAGAAGTAGATCAACCCCG
**
2791976 AATTGTGACTAAGCATCCTTCAGAGGAAAGAGTAAGATCGTCCCACGACTCAGTGTCTTTTAGAG
1 AATTACGACTAAGCATCCTT-AGAGGAAAGAGTAAGATCGTCCCACGACTCAGTGTCTTTTAGAG
* * * *
2792041 GAAATAGTGAAATCGTAACCAGGTTCAACATCCTTTAGTCAAAGAAGTAGATCAACCTCG
65 GAAATAGTGAAATCGTAACCAGATTCAACATCCTTCAGTAAAAGAAGTAGATCAACCCCG
* * * * ** *
2792101 AATTACGACTTAA-CGTCCTATAGAGGAAAAAGTAAGATCGACCCATGACTCAACGTCTTTCAGA
1 AATTACGAC-TAAGCATCCT-TAGAGGAAAGAGTAAGATCGTCCCACGACTCAGTGTCTTTTAGA
*
2792165 GGAAAGAGTGA
64 GGAAATAGTGA
2792176 GACCATTACC
Statistics
Matches: 166, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
121 3 0.02
122 37 0.22
124 1 0.01
125 121 0.73
126 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (124 bp):
AATTACGACTAAGCATCCTTAGAGGAAAGAGTAAGATCGTCCCACGACTCAGTGTCTTTTAGAGG
AAATAGTGAAATCGTAACCAGATTCAACATCCTTCAGTAAAAGAAGTAGATCAACCCCG
Found at i:2792859 original size:46 final size:46
Alignment explanation
Indices: 2792792--2792880 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
2792782 AAACTCGTTG
* *
2792792 TCTTTTTATCTTTACCCTATTCTTGTAAATACAATAATGGGTATTA
1 TCTTTTTATCTTTACCCTATTCTTGTAAACACAAGAATGGGTATTA
*
2792838 TCTTTTTATCTTTGCCCTATTCTTGTAAACACAAGAATGGGTA
1 TCTTTTTATCTTTACCCTATTCTTGTAAACACAAGAATGGGTA
2792881 AAGAGGGGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (46 bp):
TCTTTTTATCTTTACCCTATTCTTGTAAACACAAGAATGGGTATTA
Found at i:2795441 original size:6 final size:6
Alignment explanation
Indices: 2795430--2795470 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
2795420 ATTCTTCATT
2795430 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCT
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCT
2795471 TATTTTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
CTTCTC
Found at i:2795514 original size:14 final size:15
Alignment explanation
Indices: 2795492--2795520 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2795482 TCCTCCTCCT
2795492 CCTCTTTCCCTCTTC
1 CCTCTTTCCCTCTTC
2795507 CCTC-TTCCCTCTTC
1 CCTCTTTCCCTCTTC
2795521 AACTCCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (15 bp):
CCTCTTTCCCTCTTC
Found at i:2796512 original size:37 final size:37
Alignment explanation
Indices: 2796471--2796541 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
2796461 AAATTTATTT
2796471 AATCCCTGATTGTCACATGACATTTTTGATTAAATCC
1 AATCCCTGATTGTCACATGACATTTTTGATTAAATCC
2796508 AATCCCTGATTGTCACATGACATTTTTGATTAAA
1 AATCCCTGATTGTCACATGACATTTTTGATTAAA
2796542 AATGTATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (37 bp):
AATCCCTGATTGTCACATGACATTTTTGATTAAATCC
Found at i:2799296 original size:17 final size:16
Alignment explanation
Indices: 2799265--2799301 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
2799255 TATATTTTCA
*
2799265 AAATTTTATTAATAAT
1 AAATTTTAATAATAAT
2799281 AAATTTTAAATAATAAT
1 AAATTTT-AATAATAAT
2799298 AAAT
1 AAAT
2799302 CATAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTTTAATAATAAT
Found at i:2799558 original size:29 final size:30
Alignment explanation
Indices: 2799509--2799567 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
2799499 TATAGTCAAA
*
2799509 AATCAATTTGACCACTGAACT-TTCAATTG
1 AATCAATTAGACCACTGAACTATTCAATTG
*
2799538 AATCAATTAGACCATCT-AACTATTTAATTG
1 AATCAATTAGACCA-CTGAACTATTCAATTG
2799568 GTTCAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (30 bp):
AATCAATTAGACCACTGAACTATTCAATTG
Found at i:2802392 original size:18 final size:18
Alignment explanation
Indices: 2802350--2802397 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2802340 TATTTTTATG
2802350 TTTATATTATAATATTTT
1 TTTATATTATAATATTTT
* *
2802368 ATAATATTATAA-ATTTT
1 TTTATATTATAATATTTT
2802385 TTT-TA-TATAATAT
1 TTTATATTATAATAT
2802398 AGATTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.20
16 4 0.16
17 6 0.24
18 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATTATAATATTTT
Found at i:2810885 original size:4 final size:4
Alignment explanation
Indices: 2810876--2810907 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2810866 TGTGATTTTT
2810876 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
2810908 ATGAAACGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:2811040 original size:16 final size:16
Alignment explanation
Indices: 2811015--2811051 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2811005 AAAAATATAC
*
2811015 TACCCGGAGAACCGGG
1 TACCCAGAGAACCGGG
2811031 TACCCAGAGAACCGGG
1 TACCCAGAGAACCGGG
2811047 TACCC
1 TACCC
2811052 GGTACAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.35, G:0.30, T:0.08
Consensus pattern (16 bp):
TACCCAGAGAACCGGG
Found at i:2812919 original size:27 final size:26
Alignment explanation
Indices: 2812888--2812957 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
2812878 TATTGATAAC
2812888 TTAATATAAATAATTACATAACCATAT
1 TTAATATAAATAATTA-ATAACCATAT
* * *
2812915 TTAATAGAAAT-ATTAATAATCTTAT
1 TTAATATAAATAATTAATAACCATAT
2812940 TATAATATTAAAT-ATTAA
1 T-TAATA-TAAATAATTAA
2812958 AACTATACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.24
26 9 0.24
27 19 0.51
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (26 bp):
TTAATATAAATAATTAATAACCATAT
Found at i:2813000 original size:18 final size:19
Alignment explanation
Indices: 2812966--2813007 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2812956 AAAACTATAC
2812966 TATAAAAATATCTTAATA-
1 TATAAAAATATCTTAATAT
*
2812984 TATAAAAAT-TTTCTAATAT
1 TATAAAAATATCT-TAATAT
2813003 TATAA
1 TATAA
2813008 TTAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 14 0.67
19 5 0.24
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TATAAAAATATCTTAATAT
Found at i:2814305 original size:5 final size:5
Alignment explanation
Indices: 2814295--2814380 Score: 58
Period size: 5 Copynumber: 17.4 Consensus size: 5
2814285 TTATATCATT
* *
2814295 TATAA TAT-A -ATAA TATTAA TAT-A TAAAA TATAA TTATAT TA-ATA
1 TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA -TATAA TATA-A
*
2814339 TATAA TAATAA TATAA TAT-A -ATAA TATAG TAATAA TATAA TA
1 TATAA T-ATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TA
2814381 ATAGTAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
3 4 0.06
4 8 0.12
5 33 0.52
6 19 0.30
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:2814309 original size:8 final size:8
Alignment explanation
Indices: 2814296--2814392 Score: 94
Period size: 8 Copynumber: 11.8 Consensus size: 8
2814286 TATATCATTT
2814296 ATAATATA
1 ATAATATA
2814304 ATAATATTA
1 ATAATA-TA
2814313 AT-ATATA
1 ATAATATA
2814320 A-AATATA
1 ATAATATA
*
2814327 ATTATATTA
1 ATAATA-TA
2814336 AT-ATATA
1 ATAATATA
2814343 ATAATA-A
1 ATAATATA
2814350 TATAATATA
1 -ATAATATA
2814359 ATAATATAGTA
1 AT-A-ATA-TA
2814370 ATAATATA
1 ATAATATA
2814378 ATAATAGTA
1 ATAATA-TA
2814387 ATAATA
1 ATAATA
2814393 ATACAATAAT
Statistics
Matches: 77, Mismatches: 1, Indels: 21
0.78 0.01 0.21
Matches are distributed among these distances:
7 14 0.18
8 34 0.44
9 21 0.27
10 4 0.05
11 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:2814320 original size:16 final size:15
Alignment explanation
Indices: 2814299--2814404 Score: 100
Period size: 16 Copynumber: 7.1 Consensus size: 15
2814289 ATCATTTATA
2814299 ATATAATAATATTAAT
1 ATATAATAATA-TAAT
2814315 ATATAA-AATATAAT
1 ATATAATAATATAAT
*
2814329 -TATATTAATAT-AT
1 ATATAATAATATAAT
2814342 A-ATAATAATATAAT
1 ATATAATAATATAAT
2814356 ATAATAAT-ATAGTAAT
1 AT-ATAATAATA-TAAT
2814372 AATATAATAATAGTAAT
1 -ATATAATAATA-TAAT
2814389 A-ATAATACA-ATAAT
1 ATATAATA-ATATAAT
2814403 AT
1 AT
2814405 CAACTCGGAC
Statistics
Matches: 78, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
13 15 0.19
14 17 0.22
15 14 0.18
16 22 0.28
17 10 0.13
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (15 bp):
ATATAATAATATAAT
Found at i:2814332 original size:13 final size:14
Alignment explanation
Indices: 2814295--2814404 Score: 83
Period size: 13 Copynumber: 8.2 Consensus size: 14
2814285 TTATATCATT
2814295 TATAA-TATAATAA
1 TATAATTATAATAA
2814308 TATTAATATATAA-AA
1 TA-TAAT-TATAATAA
*
2814323 TATAATTATATTAA
1 TATAATTATAATAA
*
2814337 TAT-ATAATAATAA
1 TATAATTATAATAA
2814350 TATAA-TATAATAA
1 TATAATTATAATAA
*
2814363 TAT-A--GTAATAA
1 TATAATTATAATAA
* *
2814374 TATAATAATAGTAA
1 TATAATTATAATAA
*
2814388 TAATAA-TACAATAA
1 T-ATAATTATAATAA
2814402 TAT
1 TAT
2814405 CAACTCGGAC
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
11 9 0.12
12 2 0.03
13 29 0.37
14 25 0.32
15 8 0.10
16 5 0.06
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (14 bp):
TATAATTATAATAA
Found at i:2814354 original size:11 final size:11
Alignment explanation
Indices: 2814296--2814403 Score: 88
Period size: 11 Copynumber: 10.3 Consensus size: 11
2814286 TATATCATTT
2814296 ATAATATAATA
1 ATAATATAATA
2814307 AT-AT-TAAT-
1 ATAATATAATA
*
2814315 AT-ATAAAAT-
1 ATAATATAATA
*
2814324 ATAATTATATTA
1 ATAA-TATAATA
2814336 AT-ATATAATA
1 ATAATATAATA
2814346 ATAATATAATATA
1 ATAATAT-A-ATA
*
2814359 ATAATATAGTA
1 ATAATATAATA
2814370 ATAATATAATA
1 ATAATATAATA
*
2814381 AT-A-GTAATA
1 ATAATATAATA
*
2814390 ATAATACAATA
1 ATAATATAATA
2814401 ATA
1 ATA
2814404 TCAACTCGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
8 4 0.05
9 16 0.20
10 13 0.16
11 32 0.41
12 4 0.05
13 10 0.13
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (11 bp):
ATAATATAATA
Found at i:2814355 original size:47 final size:49
Alignment explanation
Indices: 2814296--2814404 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 49
2814286 TATATCATTT
* *
2814296 ATAATATAATAATATTAATATA-TAA-AATATAATTATATTAATATATAATA
1 ATAATATAAT-ATA-TAATATAGTAATAATATAATAATAGTAATA-ATAATA
2814346 ATAATATAATATAATAATATAGTAATAATATAATAATAGTAATAATAATACA
1 ATAATATAATAT-ATAATATAGTAATAATATAATAATAGTAATAATAAT--A
2814398 ATAATAT
1 ATAATAT
2814405 CAACTCGGAC
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
49 9 0.17
50 19 0.37
51 16 0.31
52 8 0.15
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.39
Consensus pattern (49 bp):
ATAATATAATATATAATATAGTAATAATATAATAATAGTAATAATAATA
Found at i:2814403 original size:3 final size:3
Alignment explanation
Indices: 2814296--2814395 Score: 88
Period size: 3 Copynumber: 35.0 Consensus size: 3
2814286 TATATCATTT
* * *
2814296 ATA AT- ATA ATA ATA TTA ATA TATA A-A AT- ATA ATT ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
2814339 TATA ATA ATA AT- ATA AT- ATA ATA AT- ATA GTA ATA AT- ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
2814381 ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA
2814396 CAATAATATC
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
2 14 0.18
3 58 0.74
4 6 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:2814574 original size:20 final size:20
Alignment explanation
Indices: 2814546--2814599 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
2814536 AAAACATCAT
* * * *
2814546 ACCCTGAGGTTTTACAGATG
1 ACCCGGAGGATTTACAAATC
*
2814566 ACCCGGAGGCTTTACAAATC
1 ACCCGGAGGATTTACAAATC
2814586 ACCCGGAGGATTTA
1 ACCCGGAGGATTTA
2814600 ATTTTCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (20 bp):
ACCCGGAGGATTTACAAATC
Found at i:2814693 original size:20 final size:20
Alignment explanation
Indices: 2814665--2814719 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
2814655 AAAACATCCT
* * *
2814665 ACCCTGAGGTTTTACAAATG
1 ACCCAGAGGTTTTAAAAATC
2814685 ACCCAGAGGTTTTAAAAATC
1 ACCCAGAGGTTTTAAAAATC
* *
2814705 ACCCGGAGGATTTAA
1 ACCCAGAGGTTTTAA
2814720 TTTTCTAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (20 bp):
ACCCAGAGGTTTTAAAAATC
Found at i:2814747 original size:119 final size:119
Alignment explanation
Indices: 2814536--2814897 Score: 571
Period size: 119 Copynumber: 3.0 Consensus size: 119
2814526 ATAAAAAATA
* *
2814536 AAAACATCATACCCTGAGGTTTTACAGATGACCCGGAGGCTTTACAAATCACCCGGAGGATTTAA
1 AAAACATCATACCCTGAGGTTTTACAAATGACCCGGAGGTTTTACAAATCACCCGGAGGATTTAA
2814601 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCATGCG
66 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCATGCG
* * *
2814655 AAAACATCCTACCCTGAGGTTTTACAAATGACCCAGAGGTTTTAAAAATCACCCGGAGGATTTAA
1 AAAACATCATACCCTGAGGTTTTACAAATGACCCGGAGGTTTTACAAATCACCCGGAGGATTTAA
* ** *
2814720 TTTTCTAGAACATTAAATGATAAACTTTGAAAATCTTTTTCTCATTTTCATGTG
66 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCATGCG
* * * * * *
2814774 AAAACATCATACCCTAAGGTTTTACATATGACCTGGAGCTTTTACAAATCATCCGGATGATTTAA
1 AAAACATCATACCCTGAGGTTTTACAAATGACCCGGAGGTTTTACAAATCACCCGGAGGATTTAA
* *
2814839 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGCA
66 TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCATGCG
2814893 AAAAC
1 AAAAC
2814898 TTCTTACTTT
Statistics
Matches: 220, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 220 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (119 bp):
AAAACATCATACCCTGAGGTTTTACAAATGACCCGGAGGTTTTACAAATCACCCGGAGGATTTAA
TTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTCATGCG
Found at i:2815512 original size:22 final size:22
Alignment explanation
Indices: 2815487--2815560 Score: 139
Period size: 22 Copynumber: 3.4 Consensus size: 22
2815477 AGCTTCCATT
2815487 TTTGAAAAGAGAATCTATCATC
1 TTTGAAAAGAGAATCTATCATC
*
2815509 TTTGAAAAGAGAATATATCATC
1 TTTGAAAAGAGAATCTATCATC
2815531 TTTGAAAAGAGAATCTATCATC
1 TTTGAAAAGAGAATCTATCATC
2815553 TTTGAAAA
1 TTTGAAAA
2815561 TAGATATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (22 bp):
TTTGAAAAGAGAATCTATCATC
Found at i:2815725 original size:57 final size:56
Alignment explanation
Indices: 2815636--2815805 Score: 261
Period size: 57 Copynumber: 3.0 Consensus size: 56
2815626 TCTTGAAACA
*
2815636 TATT-ACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCATATCTAATCAAATC
1 TATTCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCATATCTAATCAGATC
* * * *
2815691 TTTTCATAAGAAGGATTTCATCCTAATTCATTTCATGTCTCCACATCTAATCAGATC
1 TATTCACAAGAAGGATTT-ATCCTAATTCCTTTCATGTCTCCATATCTAATCAGATC
*
2815748 TATTCACAAGAAGAATTTTATCCTAATTCCTTTCATGTCTCCATATCTAATCAGATC
1 TATTCACAAGAAGGA-TTTATCCTAATTCCTTTCATGTCTCCATATCTAATCAGATC
2815805 T
1 T
2815806 CGAATAAGGT
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 3 0.03
56 12 0.12
57 84 0.82
58 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (56 bp):
TATTCACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCATATCTAATCAGATC
Found at i:2818934 original size:21 final size:21
Alignment explanation
Indices: 2818905--2818971 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
2818895 TCTTATCGTT
*
2818905 TCCT-CATCTGTTTGAATTCA
1 TCCTCCATCTGCTTGAATTCA
2818925 TCCTCCATCTGCTTGAATTCA
1 TCCTCCATCTGCTTGAATTCA
2818946 TCCTCCATCTGCTTGAATTCA
1 TCCTCCATCTGCTTGAATTCA
2818967 TCCTC
1 TCCTC
2818972 ATATCATGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 4 0.09
21 41 0.91
ACGTcount: A:0.18, C:0.33, G:0.09, T:0.40
Consensus pattern (21 bp):
TCCTCCATCTGCTTGAATTCA
Found at i:2821986 original size:26 final size:26
Alignment explanation
Indices: 2821957--2822023 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
2821947 TATTTAATAT
2821957 TAATATTAATATTAATAATCT-TATTA
1 TAATATTAATATTAATAA-CTATATTA
2821983 TAATATTAAATATTAA-AACTATATTA
1 TAATATT-AATATTAATAACTATATTA
*
2822009 TAA-ATT-ATCTTAATA
1 TAATATTAATATTAATA
2822024 TATAGAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 6 0.16
24 1 0.03
25 5 0.14
26 17 0.46
27 8 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TAATATTAATATTAATAACTATATTA
Found at i:2822024 original size:18 final size:18
Alignment explanation
Indices: 2822003--2822056 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
2821993 TATTAAAACT
2822003 ATATTATAAATTATCTTA
1 ATATTATAAATTATCTTA
*
2822021 ATA-TATAGAAATATAC-TA
1 ATATTATA-AATTAT-CTTA
2822039 ATATTAT-AATTAATCTTA
1 ATATTATAAATT-ATCTTA
2822057 TAATAATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
17 8 0.28
18 17 0.59
19 4 0.14
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATTATAAATTATCTTA
Found at i:2823369 original size:8 final size:8
Alignment explanation
Indices: 2823356--2823445 Score: 69
Period size: 8 Copynumber: 10.6 Consensus size: 8
2823346 GTAACATTTG
2823356 TAATATAA
1 TAATATAA
2823364 TAATAT--
1 TAATATAA
2823370 TAATAT-A
1 TAATATAA
2823377 TAAATATAA
1 T-AATATAA
*
2823386 TGATATTAA
1 TAATA-TAA
2823395 TATATATTAA
1 TA-ATA-TAA
*
2823405 TAATATAG
1 TAATATAA
2823413 TAATATAGTAA
1 T-A-ATA-TAA
2823424 TAATATAA
1 TAATATAA
2823432 TAATAGTAA
1 TAATA-TAA
2823441 TAATA
1 TAATA
2823446 ATACAATAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
6 6 0.09
7 1 0.01
8 25 0.36
9 21 0.30
10 13 0.19
11 3 0.04
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:2823375 original size:14 final size:15
Alignment explanation
Indices: 2823356--2823457 Score: 90
Period size: 13 Copynumber: 6.9 Consensus size: 15
2823346 GTAACATTTG
2823356 TAATATAATAATAT-
1 TAATATAATAATATA
2823370 TAATAT-ATAA-ATA
1 TAATATAATAATATA
*
2823383 TAATGATATTAATATA
1 TAAT-ATAATAATATA
2823399 T-AT-TAATAATATA
1 TAATATAATAATATA
*
2823412 GTAATATAGTAATAATA
1 -TAATATAATAAT-ATA
*
2823429 TAATAATAGTAATA-A
1 TAAT-ATAATAATATA
*
2823444 TAATACAATAATAT
1 TAATATAATAATAT
2823458 CAACTCGGAC
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
12 2 0.03
13 17 0.23
14 16 0.22
15 12 0.16
16 15 0.21
17 11 0.15
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (15 bp):
TAATATAATAATATA
Found at i:2823385 original size:22 final size:21
Alignment explanation
Indices: 2823356--2823457 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 21
2823346 GTAACATTTG
2823356 TAATATAATAATATTAATATA
1 TAATATAATAATATTAATATA
*
2823377 TAAATATAATGATATTAATATA
1 T-AATATAATAATATTAATATA
2823399 T-AT-TAATAATATAGTAATATAGTAA
1 TAATATAATAATAT--T-A-ATA-T-A
*
2823424 TAATATAATAATAGTAATA-A
1 TAATATAATAATATTAATATA
*
2823444 TAATACAATAATAT
1 TAATATAATAATAT
2823458 CAACTCGGAC
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
19 8 0.12
20 15 0.22
21 2 0.03
22 21 0.31
23 6 0.09
24 2 0.03
25 3 0.04
26 2 0.03
27 8 0.12
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (21 bp):
TAATATAATAATATTAATATA
Found at i:2823456 original size:3 final size:3
Alignment explanation
Indices: 2823356--2823448 Score: 61
Period size: 3 Copynumber: 31.7 Consensus size: 3
2823346 GTAACATTTG
* * * *
2823356 TAA T-A TAA TAA TAT TAA TATA TAA -ATA TAA TGA TAT TAA TATA TAT
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TA-A TAA
* * *
2823402 TAA TAA T-A TAG TAA T-A TAG TAA TAA T-A TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2823447 TA
1 TA
2823449 CAATAATATC
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.76
4 7 0.10
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2824325 original size:57 final size:58
Alignment explanation
Indices: 2824220--2824329 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 58
2824210 CACCTTTAGC
* * *
2824220 CTACATTAAACCCTAAGACATCAACCCCAACATACCACAAATCAACTAAACCATTAAA
1 CTACATTAAACCCAAAGACATCAACCCCAACACACCACAAATAAACTAAACCATTAAA
* *
2824278 CTACATTAACCCCAAAGACATCAA-CCCAACACACCATAAATAAACTAAACCA
1 CTACATTAAACCCAAAGACATCAACCCCAACACACCACAAATAAACTAAACCA
2824330 ACATCAAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 25 0.53
58 22 0.47
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (58 bp):
CTACATTAAACCCAAAGACATCAACCCCAACACACCACAAATAAACTAAACCATTAAA
Found at i:2825236 original size:42 final size:42
Alignment explanation
Indices: 2825160--2825247 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
2825150 ATAGCGATGT
* * * * *
2825160 TTTTGGAACAAATGTCGCAGAAGGTCAATGTCTATAGCGGCG
1 TTTTGGAACAAACGCCGCAAAAGGCCAATATCTATAGCGGCG
* *
2825202 TTTTGGAACAAACGCCGCAAAAGGCCGATATCTATATCGGCG
1 TTTTGGAACAAACGCCGCAAAAGGCCAATATCTATAGCGGCG
2825244 TTTT
1 TTTT
2825248 TTCCCAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (42 bp):
TTTTGGAACAAACGCCGCAAAAGGCCAATATCTATAGCGGCG
Found at i:2825375 original size:43 final size:42
Alignment explanation
Indices: 2825262--2825376 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
2825252 CAAAAGGTTG
* *
2825262 AGATCTATAGCGGCGTTTTTTGGATACAAATGCCCAAAAATGTC
1 AGATCTATAGCGGCG-TTTTCGGA-ATAAATGCCCAAAAATGTC
* ** *
2825306 AGATCTATAGCGACGTTTTCATAATAAATGTCGC-AAAATGTC
1 AGATCTATAGCGGCGTTTTCGGAATAAATG-CCCAAAAATGTC
*
2825348 AAGATCTATAGTGGCGTTTTCGGAATAAA
1 -AGATCTATAGCGGCGTTTTCGGAATAAA
2825377 CGCTGCAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 14 0.24
43 31 0.53
44 14 0.24
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (42 bp):
AGATCTATAGCGGCGTTTTCGGAATAAATGCCCAAAAATGTC
Found at i:2825385 original size:43 final size:42
Alignment explanation
Indices: 2825298--2825402 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
2825288 CAAATGCCCA
* *
2825298 AAAATGTCAGATCTATAGCGACGTTTTCATAATAAATGTCGC
1 AAAATGTCAGATCTATAGCGACGTTTTCAGAATAAACGTCGC
* * *
2825340 AAAATGTCAAGATCTATAGTGGCGTTTTCGGAATAAACG-CTGC
1 AAAATGTC-AGATCTATAGCGACGTTTTCAGAATAAACGTC-GC
* * *
2825383 AAAAGGTTAGATATATAGCG
1 AAAATGTCAGATCTATAGCG
2825403 GCATTTTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 19 0.37
43 33 0.63
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (42 bp):
AAAATGTCAGATCTATAGCGACGTTTTCAGAATAAACGTCGC
Found at i:2840894 original size:16 final size:17
Alignment explanation
Indices: 2840869--2840902 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2840859 CCGAGGTGTC
2840869 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
2840885 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
2840902 A
1 A
2840903 GAATGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:2841284 original size:12 final size:12
Alignment explanation
Indices: 2841266--2841296 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2841256 CATAATATCC
2841266 CATTATTCTTAT
1 CATTATTCTTAT
*
2841278 TATTATTCTTAT
1 CATTATTCTTAT
2841290 CATTATT
1 CATTATT
2841297 AACATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (12 bp):
CATTATTCTTAT
Done.